| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux |
| Exchange | H+ exchange | EX_h_e | ⇋ h_e | -1000 | 1000 | 9.5e+02 |
| Exchange | O2 exchange | EX_o2_e | ⇋ o2_e | -1000 | 1000 | 2.9e+02 |
| Exchange | CO2 exchange | EX_co2_e | ⇋ co2_e | -1000 | 1000 | 2e+02 |
| Exchange | Ammonia exchange | EX_nh4_e | ⇋ nh4_e | -1000 | 1000 | 53 |
| Exchange | Phosphate exchange | EX_pi_e | ⇋ pi_e | -1000 | 1000 | 4.8 |
| Exchange | Sulfate exchange | EX_so4_e | ⇋ so4_e | -1000 | 1000 | 1.2 |
| Exchange | K+ exchange | EX_k_e | ⇋ k_e | -1000 | 1000 | 0.96 |
| Exchange | Fe2+ exchange | EX_fe2_e | ⇋ fe2_e | -1000 | 1000 | 0.079 |
| Exchange | Mg exchange | EX_mg2_e | ⇋ mg2_e | -1000 | 1000 | 0.043 |
| Exchange | Calcium exchange | EX_ca2_e | ⇋ ca2_e | -1000 | 1000 | 0.026 |
| Exchange | Chloride exchange | EX_cl_e | ⇋ cl_e | -1000 | 1000 | 0.026 |
| Exchange | Cu2+ exchange | EX_cu2_e | ⇋ cu2_e | -1000 | 1000 | 0.0035 |
| Exchange | Mn2+ exchange | EX_mn2_e | ⇋ mn2_e | -1000 | 1000 | 0.0034 |
| Exchange | Zinc exchange | EX_zn2_e | ⇋ zn2_e | -1000 | 1000 | 0.0017 |
| Exchange | Ni2+ exchange | EX_ni2_e | ⇋ ni2_e | -1000 | 1000 | 0.0016 |
| Exchange | Molybdate exchange | EX_mobd_e | ⇋ mobd_e | -1000 | 1000 | 0.00064 |
| Exchange | Co2+ exchange | EX_cobalt2_e | ⇋ cobalt2_e | -1000 | 1000 | 0.00012 |
| Exchange | Sink needed to allow S-Adenosyl-4-methylthio-2-oxobutanoate to leave system | DM_AMOB | amob_c ⇋ | 0 | 1000 | 9.9e-06 |
| Exchange | methanol exchange | EX_meoh_e | meoh_e ⇋ | 0 | 1000 | 9.9e-06 |
| Exchange | Sink needed to allow p-Cresol to leave system | DM_4CRSOL | 4crsol_c ⇋ | 0 | 1000 | 0.0011 |
| Exchange | Sink needed to allow 5'-deoxyribose to leave system | DM_5DRIB | 5drib_c ⇋ | 0 | 1000 | 0.0011 |
| Exchange | Sink needed to allow (2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran to leave system | DM_MTHTHF | mththf_c ⇋ | 0 | 1000 | 0.0022 |
| Exchange | E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 |
| Exchange | PRK+RuBisCO | PRK+RBC | co2_c + atp_c + ru5p_D_c + h2o_c ⇋ 3 h_c + adp_c + 2 3pg_c | 0 | 1000 | 36 |
| Exchange | H2O exchange | EX_h2o_e | h2o_e ⇋ | -1000 | 1000 | 9.3e+02 |
| Exchange | free_e | RED | nad_c ⇋ nadh_c | 0 | 1000 | 1e+03 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Folate Metabolism | methenyltetrahydrofolate cyclohydrolase | MTHFC | methf_c + h2o_c ⇋ h_c + 10fthf_c | -1000 | 1000 | 4.9 | 4.9 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 | |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide formyltransferase | GARFT | 10fthf_c + gar_c ⇋ fgam_c + thf_c + h_c | -1000 | 1000 | 2.2 | -2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolecarboxamide formyltransferase | AICART | 10fthf_c + aicar_c ⇋ fprica_c + thf_c | -1000 | 1000 | 2.7 | -2.7 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycolysis/Gluconeogenesis | phosphoglycerate kinase | PGK | atp_c + 3pg_c ⇋ 13dpg_c + adp_c | -1000 | 1000 | 71 | 71 |
| Glycolysis/Gluconeogenesis | glyceraldehyde-3-phosphate dehydrogenase | GAPD | nadh_c + h_c + 13dpg_c ⇋ g3p_c + pi_c + nad_c | -1000 | 1000 | 71 | -71 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | glycerol-3-phosphate acyltransferase (C16:1) | G3PAT161 | hdeACP_c + glyc3p_c ⇋ ACP_c + 1hdec9eg3p_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | 1-hexadec-7-enoyl-sn-glycerol 3-phosphate O-acyltransferase (n-C16:1) | AGPAT161 | hdeACP_c + 1hdec9eg3p_c ⇋ ACP_c + pa161_c | 0 | 1000 | 0.37 | -0.37 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | glycerol-3-phosphate acyltransferase (C16:0) | G3PAT160 | palmACP_c + glyc3p_c ⇋ ACP_c + 1hdecg3p_c | 0 | 1000 | 0.31 | 0.31 |
| Glycerophospholipid Metabolism | 1-hexadecanoyl-sn-glycerol 3-phosphate O-acyltransferase (n-C16:0) | AGPAT160 | palmACP_c + 1hdecg3p_c ⇋ ACP_c + pa160_c | 0 | 1000 | 0.31 | -0.31 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | L-glutamate 5-semialdehyde dehydratase (spontaneous) | G5SADs | glu5sa_c ⇋ 1pyr5c_c + h_c + h2o_c | 0 | 1000 | 1.1 | 1.1 |
| Arginine and Proline Metabolism | pyrroline-5-carboxylate reductase | P5CR | 1pyr5c_c + 2 h_c + nadph_c ⇋ nadp_c + pro_L_c | 0 | 1000 | 1.1 | -1.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | dihydrodipicolinate synthase | DHDPS | pyr_c + aspsa_c ⇋ h_c + 2 h2o_c + 23dhdp_c | 0 | 1000 | 1.8 | 1.8 |
| Threonine and Lysine Metabolism | dihydrodipicolinate reductase (NADPH) | DHDPRy | 23dhdp_c + h_c + nadph_c ⇋ nadp_c + thdp_c | 0 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2,3-dihydroxy-3-methylbutanoate) | KARA1 | h_c + alac_S_c + nadph_c ⇋ 23dhmb_c + nadp_c | -1000 | 1000 | 4.3 | 4.3 |
| Valine, Leucine, and Isoleucine Metabolism | dihydroxy-acid dehydratase (2,3-dihydroxy-3-methylbutanoate) | DHAD1 | 23dhmb_c ⇋ h2o_c + 3mob_c | 0 | 1000 | 4.3 | -4.3 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2-Acetolactate) | KARA2 | 2ahbut_c + h_c + nadph_c ⇋ 23dhmp_c + nadp_c | -1000 | 1000 | 1.4 | 1.4 |
| Valine, Leucine, and Isoleucine Metabolism | Dihydroxy-acid dehydratase (2,3-dihydroxy-3-methylpentanoate) | DHAD2 | 23dhmp_c ⇋ 3mop_c + h2o_c | 0 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolesuccinocarboxamide synthase | PRASCSi | asp_L_c + 5aizc_c + atp_c ⇋ adp_c + 25aics_c + h_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate lyase | ADSL2r | 25aics_c ⇋ aicar_c + fum_c | -1000 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase II (25drapp) | GTPCII2 | gtp_c + 3 h2o_c ⇋ ppi_c + 25drapp_c + for_c + 2 h_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | diaminohydroxyphosphoribosylaminopryrimidine deaminase (25drapp) | DHPPDA2 | h_c + 25drapp_c + h2o_c ⇋ 5apru_c + nh4_c | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | succinyl-diaminopimelate desuccinylase | SDPDS | sl26da_c + h2o_c ⇋ succ_c + 26dap_LL_c | 0 | 1000 | 1.8 | 1.8 |
| Threonine and Lysine Metabolism | diaminopimelate epimerase | DAPE | 26dap_LL_c ⇋ 26dap_M_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | diaminopimelate epimerase | DAPE | 26dap_LL_c ⇋ 26dap_M_c | -1000 | 1000 | 1.8 | 1.8 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelate synthetase | UAAGDS | uamag_c + 26dap_M_c + atp_c ⇋ ugmd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Threonine and Lysine Metabolism | diaminopimelate decarboxylase | DAPDC | h_c + 26dap_M_c ⇋ co2_c + lys_L_c | 0 | 1000 | 1.7 | -1.7 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | 2-aceto-2-hydroxybutanoate synthase | ACHBS | pyr_c + 2obut_c + h_c ⇋ 2ahbut_c + co2_c | 0 | 1000 | 1.4 | 1.4 |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2-Acetolactate) | KARA2 | 2ahbut_c + h_c + nadph_c ⇋ 23dhmp_c + nadp_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycine and Serine Metabolism | L-threonine dehydrogenase | THRD | nad_c + thr_L_c ⇋ nadh_c + h_c + 2aobut_c | 0 | 1000 | 1.3e+02 | 1.3e+02 |
| Glycine and Serine Metabolism | glycine C-acetyltransferase | GLYAT | coa_c + 2aobut_c ⇋ gly_c + accoa_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | phosphoribosylanthranilate isomerase (irreversible) | PRAIi | pran_c ⇋ 2cpr5p_c | 0 | 1000 | 0.28 | 0.28 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | indole-3-glycerol-phosphate synthase | IGPS | 2cpr5p_c + h_c ⇋ co2_c + 3ig3p_c + h2o_c | 0 | 1000 | 0.28 | -0.28 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase | DDPA | e4p_c + h2o_c + pep_c ⇋ 2dda7p_c + pi_c | 0 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-dehydroquinate synthase | DHQS | 2dda7p_c ⇋ pi_c + 3dhq_c | 0 | 1000 | 1.9 | -1.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3-methyl-2-oxobutanoate hydroxymethyltransferase | MOHMT | 3mob_c + mlthf_c + h2o_c ⇋ thf_c + 2dhp_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | 2-dehydropantoate 2-reductase | DPR | 2dhp_c + h_c + nadph_c ⇋ pant_R_c + nadp_c | 0 | 1000 | 0.0028 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Biotin synthase | BTS5 | 2fe2s_c + amet_c + dtbt_c ⇋ 2fe1s_c + met_L_c + h_c + btn_c + dad_5_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] regeneration | I2FE2SR | 2fe1s_c + iscssh_c + iscu_c ⇋ iscs_c + iscu_2fe2s_c + 4 h_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Transfer | I2FE2ST | iscu_2fe2s_c + 4 h_c ⇋ iscu_c + 2fe2s_c | 0 | 1000 | 0.00014 | 0.00014 |
| Cofactor and Prosthetic Group Biosynthesis | Biotin synthase | BTS5 | 2fe2s_c + amet_c + dtbt_c ⇋ 2fe1s_c + met_L_c + h_c + btn_c + dad_5_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.00013 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate hydratase | IPPMIb | 3c3hmp_c ⇋ h2o_c + 2ippm_c | -1000 | 1000 | 2.2 | 2.2 |
| Valine, Leucine, and Isoleucine Metabolism | 3-isopropylmalate dehydratase | IPPMIa | 2ippm_c + h2o_c ⇋ 3c2hmp_c | -1000 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | phosphomethylpyrimidine kinase | PMPK | 4ampm_c + atp_c ⇋ 2mahmp_c + adp_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate diphosphorylase | TMPPP | 4mpetz_c + 2mahmp_c + h_c ⇋ thmmp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose reductoisomerase | DXPRIi | dxyl5p_c + h_c + nadph_c ⇋ 2me4p_c + nadp_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase | MEPCT | 2me4p_c + h_c + ctp_c ⇋ 4c2me_c + ppi_c | 0 | 1000 | 0.012 | -0.012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | MECDPS | 2p4c2me_c ⇋ 2mecdp_c + cmp_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 2C-methyl-D-erythritol 2,4 cyclodiphosphate dehydratase | MECDPDH5 | 2mecdp_c + h_c + 2 flxr_c ⇋ h2mb4p_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.012 | -0.012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | L-threonine deaminase | THRD_L | thr_L_c ⇋ 2obut_c + nh4_c | 0 | 1000 | 1.4 | 1.4 |
| Valine, Leucine, and Isoleucine Metabolism | 2-aceto-2-hydroxybutanoate synthase | ACHBS | pyr_c + 2obut_c + h_c ⇋ 2ahbut_c + co2_c | 0 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 2-Octaprenylphenol hydroxylase | OPHHX | 0.5 o2_c + 2oph_c ⇋ 2ohph_c | 0 | 1000 | 0.0011 | 0.0011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Octaprenyl-hydroxybenzoate decarboxylase | OPHBDC | h_c + 3ophb_c ⇋ 2oph_c + co2_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 2-Octaprenylphenol hydroxylase | OPHHX | 0.5 o2_c + 2oph_c ⇋ 2ohph_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase | CDPMEK | 4c2me_c + atp_c ⇋ 2p4c2me_c + h_c + adp_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | MECDPS | 2p4c2me_c ⇋ 2mecdp_c + cmp_c | 0 | 1000 | 0.012 | -0.012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydrogenase | PPND | nad_c + pphn_c ⇋ nadh_c + co2_c + 34hpp_c | 0 | 1000 | 0.68 | 0.68 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tyrosine transaminase | TYRTA | 34hpp_c + glu_L_c ⇋ tyr_L_c + akg_c | -1000 | 1000 | 0.68 | -0.68 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | 3-isopropylmalate dehydratase | IPPMIa | 2ippm_c + h2o_c ⇋ 3c2hmp_c | -1000 | 1000 | 2.2 | 2.2 |
| Valine, Leucine, and Isoleucine Metabolism | 3-isopropylmalate dehydrogenase | IPMD | nad_c + 3c2hmp_c ⇋ nadh_c + h_c + 3c4mop_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate synthase | IPPS | 3mob_c + h2o_c + accoa_c ⇋ coa_c + h_c + 3c3hmp_c | 0 | 1000 | 2.2 | 2.2 |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate hydratase | IPPMIb | 3c3hmp_c ⇋ h2o_c + 2ippm_c | -1000 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | 3-isopropylmalate dehydrogenase | IPMD | nad_c + 3c2hmp_c ⇋ nadh_c + h_c + 3c4mop_c | 0 | 1000 | 2.2 | 2.2 |
| Valine, Leucine, and Isoleucine Metabolism | 2-Oxo-4-methyl-3-carboxypentanoate decarboxylation | OMCDC | 3c4mop_c + h_c ⇋ co2_c + 4mop_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-dehydroquinate synthase | DHQS | 2dda7p_c ⇋ pi_c + 3dhq_c | 0 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-dehydroquinate dehydratase, irreversible | DHQTi | 3dhq_c ⇋ h2o_c + 3dhsk_c | 0 | 1000 | 1.9 | -1.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-dehydroquinate dehydratase, irreversible | DHQTi | 3dhq_c ⇋ h2o_c + 3dhsk_c | 0 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate dehydrogenase | SHK3Dr | h_c + 3dhsk_c + nadph_c ⇋ skm_c + nadp_c | -1000 | 1000 | 1.9 | -1.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster damage (peroxide, spontaneous) | FESD1s | 2 4fe4s_c + 2 h_c + h2o2_c ⇋ 2 h2o_c + 2 3fe4s_c + 2 fe3_c | 0 | 1000 | 0.019 | 0.038 |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster repair | FESR | fe2_c + 3fe4s_c ⇋ 4fe4s_c | 0 | 1000 | 0.038 | -0.038 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (acetoacetyl-CoA) | HACD1 | nadh_c + aacoa_c + h_c ⇋ 3hbcoa_c + nad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxybutanoyl-CoA) | ECOAH1 | 3hbcoa_c ⇋ h2o_c + b2coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxodecanoyl-CoA) | HACD4 | nadh_c + h_c + 3odcoa_c ⇋ 3hdcoa_c + nad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxydecanoyl-CoA) | ECOAH4 | 3hdcoa_c ⇋ h2o_c + dc2coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxododecanoyl-CoA) | HACD5 | 3oddcoa_c + h_c + nadh_c ⇋ nad_c + 3hddcoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxydodecanoyl-CoA) | ECOAH5 | 3hddcoa_c ⇋ h2o_c + dd2coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexanoyl-CoA) | HACD2 | nadh_c + 3ohcoa_c + h_c ⇋ nad_c + 3hhcoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyhexanoyl-CoA) | ECOAH2 | 3hhcoa_c ⇋ h2o_c + hx2coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexadecanoyl-CoA) | HACD7 | nadh_c + 3ohdcoa_c + h_c ⇋ 3hhdcoa_c + nad_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyhexadecanoyl-CoA) | ECOAH7 | 3hhdcoa_c ⇋ h2o_c + hdd2coa_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] reductase (n-C14:0) | 3OAR140 | 3omrsACP_c + h_c + nadph_c ⇋ nadp_c + 3hmrsACP_c | -1000 | 1000 | 0.38 | 0.38 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-N-acetylglucosamine acyltransferase | UAGAAT | uacgam_c + 3hmrsACP_c ⇋ ACP_c + u3aga_c | -1000 | 1000 | 0.19 | -0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-(3-hydroxymyristoyl)glucosamine acyltransferase | U23GAAT | 3hmrsACP_c + u3hga_c ⇋ ACP_c + h_c + u23ga_c | 0 | 1000 | 0.19 | -0.19 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxooctanoyl-CoA) | HACD3 | nadh_c + h_c + 3oocoa_c ⇋ nad_c + 3hocoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyoctanoyl-CoA) | ECOAH3 | 3hocoa_c ⇋ h2o_c + oc2coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxotetradecanoyl-CoA) | HACD6 | 3otdcoa_c + nadh_c + h_c ⇋ nad_c + 3htdcoa_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxytetradecanoyl-CoA) | ECOAH6 | 3htdcoa_c ⇋ td2coa_c + h2o_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | indole-3-glycerol-phosphate synthase | IGPS | 2cpr5p_c + h_c ⇋ co2_c + 3ig3p_c + h2o_c | 0 | 1000 | 0.28 | 0.28 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tryptophan synthase (indoleglycerol phosphate) | TRPS1 | ser_L_c + 3ig3p_c ⇋ g3p_c + trp_L_c + h2o_c | 0 | 1000 | 0.28 | -0.28 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | dihydroxy-acid dehydratase (2,3-dihydroxy-3-methylbutanoate) | DHAD1 | 23dhmb_c ⇋ h2o_c + 3mob_c | 0 | 1000 | 4.3 | 4.3 |
| Cofactor and Prosthetic Group Biosynthesis | 3-methyl-2-oxobutanoate hydroxymethyltransferase | MOHMT | 3mob_c + mlthf_c + h2o_c ⇋ thf_c + 2dhp_c | 0 | 1000 | 0.0028 | -0.0028 |
| Valine, Leucine, and Isoleucine Metabolism | valine transaminase | VALTA | 3mob_c + glu_L_c ⇋ akg_c + val_L_c | -1000 | 1000 | 2.1 | -2.1 |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate synthase | IPPS | 3mob_c + h2o_c + accoa_c ⇋ coa_c + h_c + 3c3hmp_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | Dihydroxy-acid dehydratase (2,3-dihydroxy-3-methylpentanoate) | DHAD2 | 23dhmp_c ⇋ 3mop_c + h2o_c | 0 | 1000 | 1.4 | 1.4 |
| Valine, Leucine, and Isoleucine Metabolism | isoleucine transaminase | ILETA | glu_L_c + 3mop_c ⇋ ile_L_c + akg_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (octanoyl-CoA) (r) | ACACT4r | occoa_c + accoa_c ⇋ 3odcoa_c + coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxodecanoyl-CoA) | HACD4 | nadh_c + h_c + 3odcoa_c ⇋ 3hdcoa_c + nad_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (decanoyl-CoA) (r) | ACACT5r | accoa_c + dcacoa_c ⇋ 3oddcoa_c + coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxododecanoyl-CoA) | HACD5 | 3oddcoa_c + h_c + nadh_c ⇋ nad_c + 3hddcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (butanoyl-CoA) (r) | ACACT2r | btcoa_c + accoa_c ⇋ coa_c + 3ohcoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexanoyl-CoA) | HACD2 | nadh_c + 3ohcoa_c + h_c ⇋ nad_c + 3hhcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (tetradecanoyl-CoA) (r) | ACACT7r | tdcoa_c + accoa_c ⇋ coa_c + 3ohdcoa_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexadecanoyl-CoA) | HACD7 | nadh_c + 3ohdcoa_c + h_c ⇋ 3hhdcoa_c + nad_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] synthase (n-C14:0) | 3OAS140 | ddcaACP_c + h_c + malACP_c ⇋ ACP_c + 3omrsACP_c + co2_c | 0 | 1000 | 0.38 | 0.38 |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] reductase (n-C14:0) | 3OAR140 | 3omrsACP_c + h_c + nadph_c ⇋ nadp_c + 3hmrsACP_c | -1000 | 1000 | 0.38 | -0.38 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (hexanoyl-CoA) (r) | ACACT3r | hxcoa_c + accoa_c ⇋ coa_c + 3oocoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxooctanoyl-CoA) | HACD3 | nadh_c + h_c + 3oocoa_c ⇋ nad_c + 3hocoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Hydroxybenzoate octaprenyltransferase | HBZOPT | 4hbz_c + octdp_c ⇋ 3ophb_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Octaprenyl-hydroxybenzoate decarboxylase | OPHBDC | h_c + 3ophb_c ⇋ 2oph_c + co2_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (dodecanoyl-CoA) (r) | ACACT6r | ddcacoa_c + accoa_c ⇋ coa_c + 3otdcoa_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxotetradecanoyl-CoA) | HACD6 | 3otdcoa_c + nadh_c + h_c ⇋ nad_c + 3htdcoa_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| PRK+RuBisCO | PRK+RBC | co2_c + atp_c + ru5p_D_c + h2o_c ⇋ 3 h_c + adp_c + 2 3pg_c | 0 | 1000 | 36 | 71 | |
| Glycolysis/Gluconeogenesis | phosphoglycerate kinase | PGK | atp_c + 3pg_c ⇋ 13dpg_c + adp_c | -1000 | 1000 | 71 | -71 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-phosphoshikimate 1-carboxyvinyltransferase | PSCVT | skm5p_c + pep_c ⇋ 3psme_c + pi_c | -1000 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | chorismate synthase | CHORS | 3psme_c ⇋ chor_c + pi_c | 0 | 1000 | 1.9 | -1.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 4-aminobenzoate synthase | ADCL | 4adcho_c ⇋ h_c + 4abz_c + pyr_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydropteroate synthase | DHPS2 | 6hmhptpp_c + 4abz_c ⇋ dhpt_c + ppi_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-4-deoxychorismate synthase | ADCS | chor_c + gln_L_c ⇋ 4adcho_c + glu_L_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | 4-aminobenzoate synthase | ADCL | 4adcho_c ⇋ h_c + 4abz_c + pyr_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-2-methyl-5-phosphomethylpyrimidine synthetase | AMPMS2 | nad_c + air_c + h2o_c ⇋ 4ampm_c + 2 for_c + 3 h_c + nadh_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | phosphomethylpyrimidine kinase | PMPK | 4ampm_c + atp_c ⇋ 2mahmp_c + adp_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase | MEPCT | 2me4p_c + h_c + ctp_c ⇋ 4c2me_c + ppi_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase | CDPMEK | 4c2me_c + atp_c ⇋ 2p4c2me_c + h_c + adp_c | 0 | 1000 | 0.012 | -0.012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Sink needed to allow p-Cresol to leave system | DM_4CRSOL | 4crsol_c ⇋ | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster repair | FESR | fe2_c + 3fe4s_c ⇋ 4fe4s_c | 0 | 1000 | 0.038 | 0.038 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Transfer | I4FE4ST | iscu_4fe4s_c + 4 h_c ⇋ iscu_c + 4fe4s_c | 0 | 1000 | 0.0013 | 0.0013 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0013 | |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster damage (peroxide, spontaneous) | FESD1s | 2 4fe4s_c + 2 h_c + h2o2_c ⇋ 2 h2o_c + 2 3fe4s_c + 2 fe3_c | 0 | 1000 | 0.019 | -0.038 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Chorismate pyruvate lyase | CHRPL | chor_c ⇋ 4hbz_c + pyr_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Hydroxybenzoate octaprenyltransferase | HBZOPT | 4hbz_c + octdp_c ⇋ 3ophb_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | 2-Oxo-4-methyl-3-carboxypentanoate decarboxylation | OMCDC | 3c4mop_c + h_c ⇋ co2_c + 4mop_c | 0 | 1000 | 2.2 | 2.2 |
| Valine, Leucine, and Isoleucine Metabolism | leucine transaminase (irreversible) | LEUTAi | glu_L_c + 4mop_c ⇋ leu_L_c + akg_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate diphosphorylase | TMPPP | 4mpetz_c + 2mahmp_c + h_c ⇋ thmmp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | aspartate kinase | ASPK | asp_L_c + atp_c ⇋ 4pasp_c + adp_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Threonine and Lysine Metabolism | aspartate-semialdehyde dehydrogenase | ASAD | h_c + nadph_c + 4pasp_c ⇋ aspsa_c + nadp_c + pi_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Erythrose 4-phosphate dehydrogenase | E4PD | nad_c + h2o_c + e4p_c ⇋ nadh_c + 4per_c + 2 h_c | -1000 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Erythronate 4-phosphate (4per) dehydrogenase | PERD | nad_c + 4per_c ⇋ nadh_c + h_c + ohpb_c | -1000 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate kinase | PNTK | pnto_R_c + atp_c ⇋ h_c + 4ppan_c + adp_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenate-cysteine ligase | PPNCL2 | cys_L_c + 4ppan_c + ctp_c ⇋ 4ppcys_c + ppi_c + cmp_c + h_c | 0 | 1000 | 0.0028 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenate-cysteine ligase | PPNCL2 | cys_L_c + 4ppan_c + ctp_c ⇋ 4ppcys_c + ppi_c + cmp_c + h_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenoylcysteine decarboxylase | PPCDC | 4ppcys_c + h_c ⇋ co2_c + pan4p_c | 0 | 1000 | 0.0028 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin synthase | RBFSb | 2 dmlz_c ⇋ 4r5au_c + ribflv_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | pyrimidine phosphatase | PMDPHT | h2o_c + 5aprbu_c ⇋ pi_c + 4r5au_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin synthase | RBFSa | db4p_c + 4r5au_c ⇋ dmlz_c + pi_c + 2 h2o_c | 0 | 1000 | 0.0044 | -0.0044 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase (mutase rxn) | AIRC3 | 5caiz_c ⇋ 5aizc_c | -1000 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolesuccinocarboxamide synthase | PRASCSi | asp_L_c + 5aizc_c + atp_c ⇋ adp_c + 25aics_c + h_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | glutamate-1-semialdehyde aminotransferase | G1SAT | glu1sa_c ⇋ 5aop_c | -1000 | 1000 | 0.018 | 0.018 |
| Cofactor and Prosthetic Group Biosynthesis | porphobilinogen synthase | PPBNGS | 2 5aop_c ⇋ 2 h2o_c + ppbng_c + h_c | 0 | 1000 | 0.0088 | -0.018 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 5-amino-6-(5-phosphoribosylamino)uracil reductase | APRAUR | nadph_c + h_c + 5apru_c ⇋ nadp_c + 5aprbu_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | pyrimidine phosphatase | PMDPHT | h2o_c + 5aprbu_c ⇋ pi_c + 4r5au_c | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | diaminohydroxyphosphoribosylaminopryrimidine deaminase (25drapp) | DHPPDA2 | h_c + 25drapp_c + h2o_c ⇋ 5apru_c + nh4_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | 5-amino-6-(5-phosphoribosylamino)uracil reductase | APRAUR | nadph_c + h_c + 5apru_c ⇋ nadp_c + 5aprbu_c | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase | AIRC2 | hco3_c + air_c + atp_c ⇋ 5caiz_c + adp_c + h_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase (mutase rxn) | AIRC3 | 5caiz_c ⇋ 5aizc_c | -1000 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 5'-deoxyadenosine nuclosidase | 5DOAN | dad_5_c + h2o_c ⇋ 5drib_c + ade_c | 0 | 1000 | 0.0011 | 0.0011 |
| Sink needed to allow 5'-deoxyribose to leave system | DM_5DRIB | 5drib_c ⇋ | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Folate Metabolism | 5,10-methylenetetrahydrofolate reductase (NADH) | MTHFR2 | nadh_c + mlthf_c + 2 h_c ⇋ nad_c + 5mthf_c | 0 | 1000 | 0.76 | 0.76 |
| Methionine Metabolism | methionine synthase | METS | hcys_L_c + 5mthf_c ⇋ h_c + met_L_c + thf_c | 0 | 1000 | 0.76 | -0.76 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | dihydroneopterin aldolase reversible | DHNPA2r | dhnpt_c ⇋ 6hmhpt_c + gcald_c | -1000 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | 6-hydroxymethyl-dihydropterin pyrophosphokinase | HPPK2 | 6hmhpt_c + atp_c ⇋ 6hmhptpp_c + h_c + amp_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 6-hydroxymethyl-dihydropterin pyrophosphokinase | HPPK2 | 6hmhpt_c + atp_c ⇋ 6hmhptpp_c + h_c + amp_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydropteroate synthase | DHPS2 | 6hmhptpp_c + 4abz_c ⇋ dhpt_c + ppi_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 8-amino-7-oxononanoate synthase | AOXSr2 | pimACP_c + ala_L_c ⇋ ACP_c + co2_c + 8aonn_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | adenosylmethionine-8-amino-7-oxononanoate transaminase | AMAOTr | amet_c + 8aonn_c ⇋ dann_c + amob_c | -1000 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] synthase (n-C14:0) | 3OAS140 | ddcaACP_c + h_c + malACP_c ⇋ ACP_c + 3omrsACP_c + co2_c | 0 | 1000 | 0.38 | 0.38 |
| Glycerophospholipid Metabolism | glycerol-3-phosphate acyltransferase (C16:1) | G3PAT161 | hdeACP_c + glyc3p_c ⇋ ACP_c + 1hdec9eg3p_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | 1-hexadec-7-enoyl-sn-glycerol 3-phosphate O-acyltransferase (n-C16:1) | AGPAT161 | hdeACP_c + 1hdec9eg3p_c ⇋ ACP_c + pa161_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | 1-hexadecanoyl-sn-glycerol 3-phosphate O-acyltransferase (n-C16:0) | AGPAT160 | palmACP_c + 1hdecg3p_c ⇋ ACP_c + pa160_c | 0 | 1000 | 0.31 | 0.31 |
| Glycerophospholipid Metabolism | glycerol-3-phosphate acyltransferase (C16:0) | G3PAT160 | palmACP_c + glyc3p_c ⇋ ACP_c + 1hdecg3p_c | 0 | 1000 | 0.31 | 0.31 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-(3-hydroxymyristoyl)glucosamine acyltransferase | U23GAAT | 3hmrsACP_c + u3hga_c ⇋ ACP_c + h_c + u23ga_c | 0 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-N-acetylglucosamine acyltransferase | UAGAAT | uacgam_c + 3hmrsACP_c ⇋ ACP_c + u3aga_c | -1000 | 1000 | 0.19 | 0.19 |
| Cofactor and Prosthetic Group Biosynthesis | 8-amino-7-oxononanoate synthase | AOXSr2 | pimACP_c + ala_L_c ⇋ ACP_c + co2_c + 8aonn_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester synthase | OPMEACPS | gmeACP_c + h_c + malACP_c ⇋ ACP_c + opmeACP_c + co2_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C12:0) | AACPS7 | ACP_c + ddca_c + atp_c ⇋ ddcaACP_c + ppi_c + amp_c | 0 | 1000 | 0.38 | -0.38 |
| Membrane Lipid Metabolism | Malonyl-CoA-ACP transacylase | MCOATA | ACP_c + malcoa_c ⇋ coa_c + malACP_c | -1000 | 1000 | 0.38 | -0.38 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:0) | AACPS3 | ACP_c + atp_c + hdca_c ⇋ ppi_c + palmACP_c + amp_c | 0 | 1000 | 0.63 | -0.63 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:1) | AACPS4 | ACP_c + hdcea_c + atp_c ⇋ ppi_c + hdeACP_c + amp_c | 0 | 1000 | 0.74 | -0.74 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acetyl-CoA C-acetyltransferase | ACACT1r | 2 accoa_c ⇋ aacoa_c + coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (acetoacetyl-CoA) | HACD1 | nadh_c + aacoa_c + h_c ⇋ 3hbcoa_c + nad_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | acetylornithine deacetylase | ACODA | acorn_c + h2o_c ⇋ ac_c + orn_c | 0 | 1000 | 1.5 | 1.5 |
| Cysteine Metabolism | cysteine synthase | CYSS | acser_c + h2s_c ⇋ ac_c + cys_L_c + h_c | 0 | 1000 | 1.2 | 1.2 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-acetylglucosamine deacetylase | UHGADA | h2o_c + u3aga_c ⇋ ac_c + u3hga_c | 0 | 1000 | 0.19 | 0.19 |
| Pyruvate Metabolism | acetate kinase | ACKr | ac_c + atp_c ⇋ actp_c + adp_c | -1000 | 1000 | 2.9 | -2.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycine and Serine Metabolism | glycine C-acetyltransferase | GLYAT | coa_c + 2aobut_c ⇋ gly_c + accoa_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Pyruvate Metabolism | phosphotransacetylase | PTAr | coa_c + actp_c ⇋ pi_c + accoa_c | -1000 | 1000 | 2.9 | 2.9 |
| Anaplerotic Reactions | malate synthase | MALS | glx_c + accoa_c + h2o_c ⇋ coa_c + h_c + mal_L_c | 0 | 1000 | 0.0033 | -0.0033 |
| Membrane Lipid Metabolism | acetyl-CoA carboxylase | ACCOAC | hco3_c + atp_c + accoa_c ⇋ adp_c + h_c + malcoa_c + pi_c | 0 | 1000 | 0.38 | -0.38 |
| Cell Envelope Biosynthesis | glucosamine-1-phosphate N-acetyltransferase | G1PACT | gam1p_c + accoa_c ⇋ coa_c + h_c + acgam1p_c | 0 | 1000 | 0.47 | -0.47 |
| Cysteine Metabolism | serine O-acetyltransferase | SERAT | accoa_c + ser_L_c ⇋ acser_c + coa_c | -1000 | 1000 | 1.2 | -1.2 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (tetradecanoyl-CoA) (r) | ACACT7r | tdcoa_c + accoa_c ⇋ coa_c + 3ohdcoa_c | -1000 | 1000 | 1.4 | -1.4 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (dodecanoyl-CoA) (r) | ACACT6r | ddcacoa_c + accoa_c ⇋ coa_c + 3otdcoa_c | -1000 | 1000 | 1.4 | -1.4 |
| Arginine and Proline Metabolism | N-acetylglutamate synthase | ACGS | glu_L_c + accoa_c ⇋ coa_c + h_c + acglu_c | 0 | 1000 | 1.5 | -1.5 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (decanoyl-CoA) (r) | ACACT5r | accoa_c + dcacoa_c ⇋ 3oddcoa_c + coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (hexanoyl-CoA) (r) | ACACT3r | hxcoa_c + accoa_c ⇋ coa_c + 3oocoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (butanoyl-CoA) (r) | ACACT2r | btcoa_c + accoa_c ⇋ coa_c + 3ohcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (octanoyl-CoA) (r) | ACACT4r | occoa_c + accoa_c ⇋ 3odcoa_c + coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate synthase | IPPS | 3mob_c + h2o_c + accoa_c ⇋ coa_c + h_c + 3c3hmp_c | 0 | 1000 | 2.2 | -2.2 |
| Membrane Lipid Metabolism | acetyl-CoA C-acetyltransferase | ACACT1r | 2 accoa_c ⇋ aacoa_c + coa_c | -1000 | 1000 | 1.8 | -3.5 |
| Citric Acid Cycle | citrate synthase | CS | h2o_c + oaa_c + accoa_c ⇋ coa_c + cit_c + h_c | 0 | 1000 | 5.3 | -5.3 |
| Pyruvate Metabolism | pyruvate synthase | POR5 | h_c + 2 flxr_c + co2_c + accoa_c ⇋ coa_c + 2 flxso_c + pyr_c | -1000 | 1000 | 1e+02 | -1e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | acetylglutamate kinase | ACGK | atp_c + acglu_c ⇋ adp_c + acg5p_c | 0 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | N-acetyl-g-glutamyl-phosphate reductase | AGPR | acg5p_c + h_c + nadph_c ⇋ nadp_c + acg5sa_c + pi_c | -1000 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | N-acetyl-g-glutamyl-phosphate reductase | AGPR | acg5p_c + h_c + nadph_c ⇋ nadp_c + acg5sa_c + pi_c | -1000 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | acetylornithine transaminase | ACOTA | acg5sa_c + glu_L_c ⇋ acorn_c + akg_c | -1000 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | glucosamine-1-phosphate N-acetyltransferase | G1PACT | gam1p_c + accoa_c ⇋ coa_c + h_c + acgam1p_c | 0 | 1000 | 0.47 | 0.47 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine diphosphorylase | UAGDP | utp_c + h_c + acgam1p_c ⇋ ppi_c + uacgam_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | N-acetylglutamate synthase | ACGS | glu_L_c + accoa_c ⇋ coa_c + h_c + acglu_c | 0 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | acetylglutamate kinase | ACGK | atp_c + acglu_c ⇋ adp_c + acg5p_c | 0 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Citric Acid Cycle | aconitase (half-reaction A, Citrate hydro-lyase) | ACONTa | cit_c ⇋ h2o_c + acon_C_c | -1000 | 1000 | 5.3 | 5.3 |
| Citric Acid Cycle | aconitase (half-reaction B, Isocitrate hydro-lyase) | ACONTb | acon_C_c + h2o_c ⇋ icit_c | -1000 | 1000 | 5.3 | -5.3 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | acetylornithine transaminase | ACOTA | acg5sa_c + glu_L_c ⇋ acorn_c + akg_c | -1000 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | acetylornithine deacetylase | ACODA | acorn_c + h2o_c ⇋ ac_c + orn_c | 0 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cysteine Metabolism | serine O-acetyltransferase | SERAT | accoa_c + ser_L_c ⇋ acser_c + coa_c | -1000 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | cysteine synthase | CYSS | acser_c + h2s_c ⇋ ac_c + cys_L_c + h_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pyruvate Metabolism | acetate kinase | ACKr | ac_c + atp_c ⇋ actp_c + adp_c | -1000 | 1000 | 2.9 | 2.9 |
| Pyruvate Metabolism | phosphotransacetylase | PTAr | coa_c + actp_c ⇋ pi_c + accoa_c | -1000 | 1000 | 2.9 | -2.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | S-adenosylhomocysteine nucleosidase | AHCYSNS | h2o_c + ahcys_c ⇋ ade_c + rhcys_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | 5'-deoxyadenosine nuclosidase | 5DOAN | dad_5_c + h2o_c ⇋ 5drib_c + ade_c | 0 | 1000 | 0.0011 | 0.0011 |
| Nucleotide Salvage Pathway | purine-nucleoside phosphorylase (Adenosine) | PUNP1 | ade_c + r1p_c ⇋ pi_c + adn_c | -1000 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | purine-nucleoside phosphorylase (Adenosine) | PUNP1 | ade_c + r1p_c ⇋ pi_c + adn_c | -1000 | 1000 | 0.0033 | 0.0033 |
| Nucleotide Salvage Pathway | adenosine kinase | ADNK1 | adn_c + atp_c ⇋ adp_c + h_c + amp_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | adenylate kinase | ADK1 | atp_c + amp_c ⇋ 2 adp_c | -1000 | 1000 | 1.6e+02 | 3.1e+02 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | 2.7e+02 | |
| Threonine and Lysine Metabolism | aspartate kinase | ASPK | asp_L_c + atp_c ⇋ 4pasp_c + adp_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Threonine and Lysine Metabolism | homoserine kinase | HSK | hom_L_c + atp_c ⇋ phom_c + adp_c + h_c | 0 | 1000 | 1.3e+02 | 1.3e+02 |
| Glycolysis/Gluconeogenesis | phosphoglycerate kinase | PGK | atp_c + 3pg_c ⇋ 13dpg_c + adp_c | -1000 | 1000 | 71 | 71 |
| PRK+RuBisCO | PRK+RBC | co2_c + atp_c + ru5p_D_c + h2o_c ⇋ 3 h_c + adp_c + 2 3pg_c | 0 | 1000 | 36 | 36 | |
| Glutamate Metabolism | glutamine synthetase | GLNS | atp_c + glu_L_c + nh4_c ⇋ h_c + adp_c + pi_c + gln_L_c | 0 | 1000 | 8.9 | 8.9 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:GDP) | NDPK1 | atp_c + gdp_c ⇋ adp_c + gtp_c | -1000 | 1000 | 3.8 | 3.8 |
| Unassigned | Carbamate kinase | CBMKr | nh4_c + co2_c + atp_c ⇋ cbp_c + 2 h_c + adp_c | -1000 | 1000 | 3.1 | 3.1 |
| Pyruvate Metabolism | acetate kinase | ACKr | ac_c + atp_c ⇋ actp_c + adp_c | -1000 | 1000 | 2.9 | 2.9 |
| Citric Acid Cycle | succinyl-CoA synthetase (ADP-forming) | SUCOAS | coa_c + atp_c + succ_c ⇋ adp_c + pi_c + succoa_c | -1000 | 1000 | 2.6 | 2.6 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole synthase | PRAIS | fpram_c + atp_c ⇋ air_c + adp_c + pi_c + 2 h_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide synthase | PRAGSr | gly_c + pram_c + atp_c ⇋ adp_c + h_c + gar_c + pi_c | -1000 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase | AIRC2 | hco3_c + air_c + atp_c ⇋ 5caiz_c + adp_c + h_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolesuccinocarboxamide synthase | PRASCSi | asp_L_c + 5aizc_c + atp_c ⇋ adp_c + 25aics_c + h_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:UDP) | NDPK2 | udp_c + atp_c ⇋ adp_c + utp_c | -1000 | 1000 | 2.1 | 2.1 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate kinase | SHKK | skm_c + atp_c ⇋ skm5p_c + adp_c + h_c | 0 | 1000 | 1.9 | 1.9 |
| Nucleotide Salvage Pathway | UMP kinase | UMPK | atp_c + ump_c ⇋ udp_c + adp_c | -1000 | 1000 | 1.9 | 1.9 |
| Arginine and Proline Metabolism | acetylglutamate kinase | ACGK | atp_c + acglu_c ⇋ adp_c + acg5p_c | 0 | 1000 | 1.5 | 1.5 |
| Cysteine Metabolism | adenylyl-sulfate kinase | ADSK | atp_c + aps_c ⇋ paps_c + adp_c + h_c | 0 | 1000 | 1.2 | 1.2 |
| Nucleotide Salvage Pathway | guanylate kinase (GMP:ATP) | GK1 | gmp_c + atp_c ⇋ adp_c + gdp_c | -1000 | 1000 | 1.2 | 1.2 |
| Arginine and Proline Metabolism | glutamate 5-kinase | GLU5K | glu_L_c + atp_c ⇋ adp_c + glu5p_c | 0 | 1000 | 1.1 | 1.1 |
| Nucleotide Salvage Pathway | cytidylate kinase (CMP) | CYTK1 | cmp_c + atp_c ⇋ cdp_c + adp_c | -1000 | 1000 | 0.89 | 0.89 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:CDP) | NDPK3 | cdp_c + atp_c ⇋ adp_c + ctp_c | -1000 | 1000 | 0.89 | 0.89 |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | 0.79 |
| Membrane Lipid Metabolism | acetyl-CoA carboxylase | ACCOAC | hco3_c + atp_c + accoa_c ⇋ adp_c + h_c + malcoa_c + pi_c | 0 | 1000 | 0.38 | 0.38 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:0, periplasm) | PE160abcpp | h2o_c + pe160_c + atp_c ⇋ pe160_p + adp_c + h_c + pi_c | 0 | 1000 | 0.23 | 0.23 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase | UAMAGS | uama_c + atp_c + glu_D_c ⇋ uamag_c + h_c + adp_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanine synthetase | UAMAS | uamr_c + ala_L_c + atp_c ⇋ uama_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine synthetase | UGMDDS | ugmd_c + alaala_c + atp_c ⇋ adp_c + h_c + pi_c + ugmda_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelate synthetase | UAAGDS | uamag_c + 26dap_M_c + atp_c ⇋ ugmd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | D-alanine-D-alanine ligase (reversible) | ALAALAr | atp_c + 2 ala_D_c ⇋ adp_c + h_c + pi_c + alaala_c | -1000 | 1000 | 0.14 | 0.14 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:dGDP) | NDPK5 | atp_c + dgdp_c ⇋ dgtp_c + adp_c | -1000 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | dTMP kinase | DTMPK | dtmp_c + atp_c ⇋ adp_c + dtdp_c | -1000 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:dTDP) | NDPK4 | dtdp_c + atp_c ⇋ adp_c + dttp_c | -1000 | 1000 | 0.13 | 0.13 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:1, periplasm) | PE161abcpp | h2o_c + pe161_c + atp_c ⇋ adp_c + h_c + pi_c + pe161_p | 0 | 1000 | 0.1 | 0.1 |
| Transport, Inner Membrane | KDO(2)-lipid IV A transport via ABC system (periplasm) | K2L4Aabcpp | kdo2lipid4_c + atp_c + h2o_c ⇋ h_c + adp_c + kdo2lipid4_p + pi_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | KDO(2)-lipid IV A transport via ABC system (periplasm to extracellular) | K2L4Aabctex | kdo2lipid4_p + h2o_c + atp_c ⇋ kdo2lipid4_e + adp_c + h_c + pi_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | Tetraacyldisaccharide 4'kinase | TDSK | lipidAds_c + atp_c ⇋ adp_c + h_c + lipidA_c | 0 | 1000 | 0.096 | 0.096 |
| Purine and Pyrimidine Biosynthesis | GAR transformylase-T | GART | gar_c + for_c + atp_c ⇋ fgam_c + adp_c + h_c + pi_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase | CDPMEK | 4c2me_c + atp_c ⇋ 2p4c2me_c + h_c + adp_c | 0 | 1000 | 0.012 | 0.012 |
| Nucleotide Salvage Pathway | adenosine kinase | ADNK1 | adn_c + atp_c ⇋ adp_c + h_c + amp_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate synthase | DHFS | glu_L_c + atp_c + dhpt_c ⇋ h_c + dhf_c + adp_c + pi_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate kinase | PNTK | pnto_R_c + atp_c ⇋ h_c + 4ppan_c + adp_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | dephospho-CoA kinase | DPCOAK | dpcoa_c + atp_c ⇋ coa_c + adp_c + h_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | NAD kinase | NADK | nad_c + atp_c ⇋ nadp_c + adp_c + h_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin kinase | RBFK | atp_c + ribflv_c ⇋ adp_c + h_c + fmn_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | phosphomethylpyrimidine kinase | PMPK | 4ampm_c + atp_c ⇋ 2mahmp_c + adp_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate kinase | TMPK | thmmp_c + atp_c ⇋ adp_c + thmpp_c | 0 | 1000 | 0.0011 | 0.0011 |
| Inorganic Ion Transport and Metabolism | molybdate transport via ABC system (periplasm) | MOBDabcpp | mobd_p + atp_c + h2o_c ⇋ mobd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.00064 | 0.00064 |
| Cofactor and Prosthetic Group Biosynthesis | dethiobiotin synthase | DBTS | dann_c + co2_c + atp_c ⇋ adp_c + 3 h_c + pi_c + dtbt_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Oxidative Phosphorylation | polyphosphate kinase | PPKr | ppi_c + adp_c ⇋ atp_c + pi_c | -1000 | 1000 | 17 | -17 |
| Oxidative Phosphorylation | ATP synthase (four protons for one ATP) (periplasm) | ATPS4rpp | adp_c + pi_c + 4 h_p ⇋ 3 h_c + atp_c + h2o_c | -1000 | 1000 | 9.8e+02 | -9.8e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen methyltransferase | UPP3MT | uppg3_c + 2 amet_c ⇋ dscl_c + 2 ahcys_c + h_c | 0 | 1000 | 0.0011 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | Malonyl-CoA methyltransferase | MALCOAMT | amet_c + malcoa_c ⇋ ahcys_c + malcoame_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Methionine Metabolism | S-adenosylhomocysteine nucleosidase | AHCYSNS | h2o_c + ahcys_c ⇋ ade_c + rhcys_c | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase I | GTPCI | h2o_c + gtp_c ⇋ ahdt_c + for_c + h_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin triphosphate pyrophosphatase | DNTPPA | ahdt_c + h2o_c ⇋ ppi_c + dhpmp_c + h_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate lyase | ADSL2r | 25aics_c ⇋ aicar_c + fum_c | -1000 | 1000 | 2.2 | 2.2 |
| Histidine Metabolism | Imidazole-glycerol-3-phosphate synthase | IG3PS | prlp_c + gln_L_c ⇋ eig3p_c + glu_L_c + h_c + aicar_c | 0 | 1000 | 0.47 | 0.47 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolecarboxamide formyltransferase | AICART | 10fthf_c + aicar_c ⇋ fprica_c + thf_c | -1000 | 1000 | 2.7 | -2.7 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole synthase | PRAIS | fpram_c + atp_c ⇋ air_c + adp_c + pi_c + 2 h_c | 0 | 1000 | 2.2 | 2.2 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-2-methyl-5-phosphomethylpyrimidine synthetase | AMPMS2 | nad_c + air_c + h2o_c ⇋ 4ampm_c + 2 for_c + 3 h_c + nadh_c | 0 | 1000 | 0.0011 | -0.0011 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase | AIRC2 | hco3_c + air_c + atp_c ⇋ 5caiz_c + adp_c + h_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alanine and Aspartate Metabolism | aspartate transaminase | ASPTA | glu_L_c + oaa_c ⇋ akg_c + asp_L_c | -1000 | 1000 | 1.4e+02 | 1.4e+02 |
| Citric Acid Cycle | isocitrate dehydrogenase (NADP) | ICDHyr | nadp_c + icit_c ⇋ akg_c + nadph_c + co2_c | -1000 | 1000 | 5.3 | 5.3 |
| Alanine and Aspartate Metabolism | L-alanine transaminase | ALATA_L | pyr_c + glu_L_c ⇋ ala_L_c + akg_c | -1000 | 1000 | 2.9 | 2.9 |
| Valine, Leucine, and Isoleucine Metabolism | leucine transaminase (irreversible) | LEUTAi | glu_L_c + 4mop_c ⇋ leu_L_c + akg_c | 0 | 1000 | 2.2 | 2.2 |
| Valine, Leucine, and Isoleucine Metabolism | valine transaminase | VALTA | 3mob_c + glu_L_c ⇋ akg_c + val_L_c | -1000 | 1000 | 2.1 | 2.1 |
| Threonine and Lysine Metabolism | succinyldiaminopimelate transaminase | SDPTA | glu_L_c + sl2a6o_c ⇋ sl26da_c + akg_c | -1000 | 1000 | 1.8 | 1.8 |
| Arginine and Proline Metabolism | acetylornithine transaminase | ACOTA | acg5sa_c + glu_L_c ⇋ acorn_c + akg_c | -1000 | 1000 | 1.5 | 1.5 |
| Valine, Leucine, and Isoleucine Metabolism | isoleucine transaminase | ILETA | glu_L_c + 3mop_c ⇋ ile_L_c + akg_c | -1000 | 1000 | 1.4 | 1.4 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | phenylalanine transaminase | PHETA1 | glu_L_c + phpyr_c ⇋ phe_L_c + akg_c | -1000 | 1000 | 0.91 | 0.91 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tyrosine transaminase | TYRTA | 34hpp_c + glu_L_c ⇋ tyr_L_c + akg_c | -1000 | 1000 | 0.68 | 0.68 |
| Histidine Metabolism | histidinol-phosphate transaminase | HSTPT | imacp_c + glu_L_c ⇋ akg_c + hisp_c | 0 | 1000 | 0.47 | 0.47 |
| Cofactor and Prosthetic Group Biosynthesis | O-Phospho-4-hydroxy-L-threonine:2-oxoglutarate aminotransferase | OHPBAT | glu_L_c + ohpb_c ⇋ akg_c + phthr_c | -1000 | 1000 | 0.0011 | 0.0011 |
| Glutamate Metabolism | glutamate dehydrogenase (NADP) | GLUDy | h_c + akg_c + nadph_c + nh4_c ⇋ nadp_c + h2o_c + glu_L_c | -1000 | 1000 | 1.6e+02 | -1.6e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | aspartate 1-decarboxylase | ASP1DC | asp_L_c + h_c ⇋ ala_B_c + co2_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate synthase | PANTS | pant_R_c + atp_c + ala_B_c ⇋ pnto_R_c + h_c + amp_c + ppi_c | 0 | 1000 | 0.0028 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alanine and Aspartate Metabolism | alanine racemase | ALAR | ala_L_c ⇋ ala_D_c | -1000 | 1000 | 0.21 | 0.21 |
| Transport, Inner Membrane | D-alanine transport in via proton symport (periplasm) | DALAt2pp | ala_D_p + h_p ⇋ ala_D_c + h_c | 0 | 1000 | 0.068 | 0.068 |
| Cell Envelope Biosynthesis | D-alanine-D-alanine ligase (reversible) | ALAALAr | atp_c + 2 ala_D_c ⇋ adp_c + h_c + pi_c + alaala_c | -1000 | 1000 | 0.14 | -0.27 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alanine and Aspartate Metabolism | L-alanine transaminase | ALATA_L | pyr_c + glu_L_c ⇋ ala_L_c + akg_c | -1000 | 1000 | 2.9 | 2.9 |
| Cofactor and Prosthetic Group Biosynthesis | ISC Cysteine desulfuration | ICYSDS | iscs_c + cys_L_c ⇋ ala_L_c + iscssh_c | 0 | 1000 | 0.0089 | 0.0089 |
| Cofactor and Prosthetic Group Biosynthesis | 8-amino-7-oxononanoate synthase | AOXSr2 | pimACP_c + ala_L_c ⇋ ACP_c + co2_c + 8aonn_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanine synthetase | UAMAS | uamr_c + ala_L_c + atp_c ⇋ uama_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Alanine and Aspartate Metabolism | alanine racemase | ALAR | ala_L_c ⇋ ala_D_c | -1000 | 1000 | 0.21 | -0.21 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -2.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | D-alanine-D-alanine ligase (reversible) | ALAALAr | atp_c + 2 ala_D_c ⇋ adp_c + h_c + pi_c + alaala_c | -1000 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine synthetase | UGMDDS | ugmd_c + alaala_c + atp_c ⇋ adp_c + h_c + pi_c + ugmda_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | acetolactate synthase | ACLS | h_c + 2 pyr_c ⇋ alac_S_c + co2_c | 0 | 1000 | 4.3 | 4.3 |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2,3-dihydroxy-3-methylbutanoate) | KARA1 | h_c + alac_S_c + nadph_c ⇋ 23dhmb_c + nadp_c | -1000 | 1000 | 4.3 | -4.3 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | methionine adenosyltransferase | METAT | met_L_c + atp_c + h2o_c ⇋ amet_c + ppi_c + pi_c | 0 | 1000 | 0.0044 | 0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | adenosylmethionine-8-amino-7-oxononanoate transaminase | AMAOTr | amet_c + 8aonn_c ⇋ dann_c + amob_c | -1000 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Malonyl-CoA methyltransferase | MALCOAMT | amet_c + malcoa_c ⇋ ahcys_c + malcoame_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Biotin synthase | BTS5 | 2fe2s_c + amet_c + dtbt_c ⇋ 2fe1s_c + met_L_c + h_c + btn_c + dad_5_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | -0.0011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 | |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen methyltransferase | UPP3MT | uppg3_c + 2 amet_c ⇋ dscl_c + 2 ahcys_c + h_c | 0 | 1000 | 0.0011 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | adenosylmethionine-8-amino-7-oxononanoate transaminase | AMAOTr | amet_c + 8aonn_c ⇋ dann_c + amob_c | -1000 | 1000 | 9.9e-06 | 9.9e-06 |
| Sink needed to allow S-Adenosyl-4-methylthio-2-oxobutanoate to leave system | DM_AMOB | amob_c ⇋ | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycolysis/Gluconeogenesis | phosphoenolpyruvate synthase | PPS | pyr_c + h2o_c + atp_c ⇋ amp_c + pep_c + 2 h_c + pi_c | 0 | 1000 | 1.4e+02 | 1.4e+02 |
| Histidine Metabolism | phosphoribosylpyrophosphate synthetase | PRPPS | atp_c + r5p_c ⇋ amp_c + h_c + prpp_c | -1000 | 1000 | 4.6 | 4.6 |
| Purine and Pyrimidine Biosynthesis | adenylsuccinate lyase | ADSL1r | dcamp_c ⇋ amp_c + fum_c | -1000 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | argininosuccinate synthase | ARGSS | asp_L_c + citr_L_c + atp_c ⇋ amp_c + argsuc_c + h_c + ppi_c | 0 | 1000 | 1.5 | 1.5 |
| Cysteine Metabolism | 3',5'-bisphosphate nucleotidase | BPNT | pap_c + h2o_c ⇋ amp_c + pi_c | 0 | 1000 | 1.2 | 1.2 |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | 1.2 |
| Alanine and Aspartate Metabolism | asparagine synthetase | ASNS2 | nh4_c + asp_L_c + atp_c ⇋ ppi_c + h_c + asn_L_c + amp_c | 0 | 1000 | 1.2 | 1.2 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:1) | AACPS4 | ACP_c + hdcea_c + atp_c ⇋ ppi_c + hdeACP_c + amp_c | 0 | 1000 | 0.74 | 0.74 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:0) | AACPS3 | ACP_c + atp_c + hdca_c ⇋ ppi_c + palmACP_c + amp_c | 0 | 1000 | 0.63 | 0.63 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C12:0) | AACPS7 | ACP_c + ddca_c + atp_c ⇋ ddcaACP_c + ppi_c + amp_c | 0 | 1000 | 0.38 | 0.38 |
| Cofactor and Prosthetic Group Biosynthesis | Glutamyl-tRNA synthetase | GLUTRS | glu_L_c + atp_c + trnaglu_c ⇋ glutrna_c + amp_c + ppi_c | 0 | 1000 | 0.018 | 0.018 |
| Cofactor and Prosthetic Group Biosynthesis | NAD synthase (nh3) | NADS1 | nh4_c + dnad_c + atp_c ⇋ h_c + nad_c + ppi_c + amp_c | 0 | 1000 | 0.011 | 0.011 |
| Nucleotide Salvage Pathway | adenosine kinase | ADNK1 | adn_c + atp_c ⇋ adp_c + h_c + amp_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | 6-hydroxymethyl-dihydropterin pyrophosphokinase | HPPK2 | 6hmhpt_c + atp_c ⇋ 6hmhptpp_c + h_c + amp_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate synthase | PANTS | pant_R_c + atp_c + ala_B_c ⇋ pnto_R_c + h_c + amp_c + ppi_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | MoaD sulfuration (nadh, assumed) | MOADSUx | nadh_c + iscssh_c + moadamp_c ⇋ amp_c + nad_c + iscs_c + moadcosh_c | 0 | 1000 | 0.0024 | 0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | molybdenum cofactor synthase | MOCOS | mptamp_c + mobd_c + 2 h_c ⇋ h2o_c + amp_c + moco_c + cu2_c | 0 | 1000 | 0.0006 | 0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdenum cofactor synthase | BMOCOS | mptamp_c + moco_c ⇋ bmoco_c + cu2_c + amp_c | 0 | 1000 | 0.0006 | 0.0006 |
| Nucleotide Salvage Pathway | adenylate kinase | ADK1 | atp_c + amp_c ⇋ 2 adp_c | -1000 | 1000 | 1.6e+02 | -1.6e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate synthase | ANS | chor_c + gln_L_c ⇋ pyr_c + h_c + anth_c + glu_L_c | 0 | 1000 | 0.28 | 0.28 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate phosphoribosyltransferase | ANPRT | prpp_c + anth_c ⇋ ppi_c + pran_c | 0 | 1000 | 0.28 | -0.28 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cysteine Metabolism | Sulfate adenyltransferase | SADT2 | so4_c + atp_c + h2o_c + gtp_c ⇋ aps_c + ppi_c + pi_c + gdp_c | 0 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | adenylyl-sulfate kinase | ADSK | atp_c + aps_c ⇋ paps_c + adp_c + h_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alternate Carbon Metabolism | arabinose-5-phosphate isomerase | A5PISO | ru5p_D_c ⇋ ara5p_c | -1000 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy -D-manno-octulosonic -acid 8-phosphate synthase | KDOPS | ara5p_c + pep_c + h2o_c ⇋ kdo8p_c + pi_c | 0 | 1000 | 0.19 | -0.19 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | argininosuccinate lyase | ARGSL | argsuc_c ⇋ arg_L_c + fum_c | -1000 | 1000 | 1.5 | 1.5 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | argininosuccinate synthase | ARGSS | asp_L_c + citr_L_c + atp_c ⇋ amp_c + argsuc_c + h_c + ppi_c | 0 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | argininosuccinate lyase | ARGSL | argsuc_c ⇋ arg_L_c + fum_c | -1000 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alanine and Aspartate Metabolism | asparagine synthetase | ASNS2 | nh4_c + asp_L_c + atp_c ⇋ ppi_c + h_c + asn_L_c + amp_c | 0 | 1000 | 1.2 | 1.2 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alanine and Aspartate Metabolism | aspartate transaminase | ASPTA | glu_L_c + oaa_c ⇋ akg_c + asp_L_c | -1000 | 1000 | 1.4e+02 | 1.4e+02 |
| Cofactor and Prosthetic Group Biosynthesis | aspartate 1-decarboxylase | ASP1DC | asp_L_c + h_c ⇋ ala_B_c + co2_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | L-aspartate oxidase | ASPO6 | o2_c + asp_L_c ⇋ h_c + iasp_c + h2o2_c | 0 | 1000 | 0.011 | -0.011 |
| Alanine and Aspartate Metabolism | asparagine synthetase | ASNS2 | nh4_c + asp_L_c + atp_c ⇋ ppi_c + h_c + asn_L_c + amp_c | 0 | 1000 | 1.2 | -1.2 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.2 | |
| Arginine and Proline Metabolism | argininosuccinate synthase | ARGSS | asp_L_c + citr_L_c + atp_c ⇋ amp_c + argsuc_c + h_c + ppi_c | 0 | 1000 | 1.5 | -1.5 |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate synthase | ADSS | asp_L_c + gtp_c + imp_c ⇋ 2 h_c + dcamp_c + pi_c + gdp_c | 0 | 1000 | 1.5 | -1.5 |
| Purine and Pyrimidine Biosynthesis | aspartate carbamoyltransferase | ASPCT | cbp_c + asp_L_c ⇋ h_c + pi_c + cbasp_c | 0 | 1000 | 1.6 | -1.6 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolesuccinocarboxamide synthase | PRASCSi | asp_L_c + 5aizc_c + atp_c ⇋ adp_c + 25aics_c + h_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Threonine and Lysine Metabolism | aspartate kinase | ASPK | asp_L_c + atp_c ⇋ 4pasp_c + adp_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | aspartate-semialdehyde dehydrogenase | ASAD | h_c + nadph_c + 4pasp_c ⇋ aspsa_c + nadp_c + pi_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Threonine and Lysine Metabolism | dihydrodipicolinate synthase | DHDPS | pyr_c + aspsa_c ⇋ h_c + 2 h2o_c + 23dhdp_c | 0 | 1000 | 1.8 | -1.8 |
| Threonine and Lysine Metabolism | homoserine dehydrogenase (NADPH) | HSDy | aspsa_c + nadph_c + h_c ⇋ hom_L_c + nadp_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | ATP synthase (four protons for one ATP) (periplasm) | ATPS4rpp | adp_c + pi_c + 4 h_p ⇋ 3 h_c + atp_c + h2o_c | -1000 | 1000 | 9.8e+02 | 9.8e+02 |
| Oxidative Phosphorylation | polyphosphate kinase | PPKr | ppi_c + adp_c ⇋ atp_c + pi_c | -1000 | 1000 | 17 | 17 |
| Cofactor and Prosthetic Group Biosynthesis | dethiobiotin synthase | DBTS | dann_c + co2_c + atp_c ⇋ adp_c + 3 h_c + pi_c + dtbt_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Inorganic Ion Transport and Metabolism | molybdate transport via ABC system (periplasm) | MOBDabcpp | mobd_p + atp_c + h2o_c ⇋ mobd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.00064 | -0.00064 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate kinase | TMPK | thmmp_c + atp_c ⇋ adp_c + thmpp_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | phosphomethylpyrimidine kinase | PMPK | 4ampm_c + atp_c ⇋ 2mahmp_c + adp_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | FMN adenylyltransferase | FMNAT | h_c + atp_c + fmn_c ⇋ fad_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin kinase | RBFK | atp_c + ribflv_c ⇋ adp_c + h_c + fmn_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin adenylyltransferase | MPTAT | mpt_c + h_c + atp_c ⇋ mptamp_c + ppi_c | 0 | 1000 | 0.0012 | -0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | NAD kinase | NADK | nad_c + atp_c ⇋ nadp_c + adp_c + h_c | 0 | 1000 | 0.0022 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase sulfurylase | MPTSS | moadcoo_c + h_c + atp_c ⇋ ppi_c + moadamp_c | 0 | 1000 | 0.0024 | -0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate synthase | PANTS | pant_R_c + atp_c + ala_B_c ⇋ pnto_R_c + h_c + amp_c + ppi_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantetheine-phosphate adenylyltransferase | PTPATi | h_c + atp_c + pan4p_c ⇋ ppi_c + dpcoa_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate kinase | PNTK | pnto_R_c + atp_c ⇋ h_c + 4ppan_c + adp_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | dephospho-CoA kinase | DPCOAK | dpcoa_c + atp_c ⇋ coa_c + adp_c + h_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | 6-hydroxymethyl-dihydropterin pyrophosphokinase | HPPK2 | 6hmhpt_c + atp_c ⇋ 6hmhptpp_c + h_c + amp_c | 0 | 1000 | 0.0033 | -0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate synthase | DHFS | glu_L_c + atp_c + dhpt_c ⇋ h_c + dhf_c + adp_c + pi_c | 0 | 1000 | 0.0033 | -0.0033 |
| Nucleotide Salvage Pathway | adenosine kinase | ADNK1 | adn_c + atp_c ⇋ adp_c + h_c + amp_c | 0 | 1000 | 0.0033 | -0.0033 |
| Methionine Metabolism | methionine adenosyltransferase | METAT | met_L_c + atp_c + h2o_c ⇋ amet_c + ppi_c + pi_c | 0 | 1000 | 0.0044 | -0.0044 |
| Nucleotide Salvage Pathway | nicotinate-nucleotide adenylyltransferase | NNATr | nicrnt_c + h_c + atp_c ⇋ ppi_c + dnad_c | -1000 | 1000 | 0.011 | -0.011 |
| Cofactor and Prosthetic Group Biosynthesis | NAD synthase (nh3) | NADS1 | nh4_c + dnad_c + atp_c ⇋ h_c + nad_c + ppi_c + amp_c | 0 | 1000 | 0.011 | -0.011 |
| Cofactor and Prosthetic Group Biosynthesis | 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase | CDPMEK | 4c2me_c + atp_c ⇋ 2p4c2me_c + h_c + adp_c | 0 | 1000 | 0.012 | -0.012 |
| Purine and Pyrimidine Biosynthesis | GAR transformylase-T | GART | gar_c + for_c + atp_c ⇋ fgam_c + adp_c + h_c + pi_c | 0 | 1000 | 0.012 | -0.012 |
| Cofactor and Prosthetic Group Biosynthesis | Glutamyl-tRNA synthetase | GLUTRS | glu_L_c + atp_c + trnaglu_c ⇋ glutrna_c + amp_c + ppi_c | 0 | 1000 | 0.018 | -0.018 |
| Lipopolysaccharide Biosynthesis / Recycling | KDO(2)-lipid IV A transport via ABC system (periplasm to extracellular) | K2L4Aabctex | kdo2lipid4_p + h2o_c + atp_c ⇋ kdo2lipid4_e + adp_c + h_c + pi_c | 0 | 1000 | 0.096 | -0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | Tetraacyldisaccharide 4'kinase | TDSK | lipidAds_c + atp_c ⇋ adp_c + h_c + lipidA_c | 0 | 1000 | 0.096 | -0.096 |
| Transport, Inner Membrane | KDO(2)-lipid IV A transport via ABC system (periplasm) | K2L4Aabcpp | kdo2lipid4_c + atp_c + h2o_c ⇋ h_c + adp_c + kdo2lipid4_p + pi_c | 0 | 1000 | 0.096 | -0.096 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:1, periplasm) | PE161abcpp | h2o_c + pe161_c + atp_c ⇋ adp_c + h_c + pi_c + pe161_p | 0 | 1000 | 0.1 | -0.1 |
| Nucleotide Salvage Pathway | dTMP kinase | DTMPK | dtmp_c + atp_c ⇋ adp_c + dtdp_c | -1000 | 1000 | 0.13 | -0.13 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:dTDP) | NDPK4 | dtdp_c + atp_c ⇋ adp_c + dttp_c | -1000 | 1000 | 0.13 | -0.13 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (ATP) (flavodoxin) | RNTR1c2 | atp_c + 2 h_c + 2 flxr_c ⇋ datp_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.13 | -0.13 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:dGDP) | NDPK5 | atp_c + dgdp_c ⇋ dgtp_c + adp_c | -1000 | 1000 | 0.13 | -0.13 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase | UAMAGS | uama_c + atp_c + glu_D_c ⇋ uamag_c + h_c + adp_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Cell Envelope Biosynthesis | D-alanine-D-alanine ligase (reversible) | ALAALAr | atp_c + 2 ala_D_c ⇋ adp_c + h_c + pi_c + alaala_c | -1000 | 1000 | 0.14 | -0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanine synthetase | UAMAS | uamr_c + ala_L_c + atp_c ⇋ uama_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelate synthetase | UAAGDS | uamag_c + 26dap_M_c + atp_c ⇋ ugmd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine synthetase | UGMDDS | ugmd_c + alaala_c + atp_c ⇋ adp_c + h_c + pi_c + ugmda_c | 0 | 1000 | 0.14 | -0.14 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:0, periplasm) | PE160abcpp | h2o_c + pe160_c + atp_c ⇋ pe160_p + adp_c + h_c + pi_c | 0 | 1000 | 0.23 | -0.23 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C12:0) | AACPS7 | ACP_c + ddca_c + atp_c ⇋ ddcaACP_c + ppi_c + amp_c | 0 | 1000 | 0.38 | -0.38 |
| Membrane Lipid Metabolism | acetyl-CoA carboxylase | ACCOAC | hco3_c + atp_c + accoa_c ⇋ adp_c + h_c + malcoa_c + pi_c | 0 | 1000 | 0.38 | -0.38 |
| Histidine Metabolism | ATP phosphoribosyltransferase | ATPPRT | atp_c + prpp_c ⇋ prbatp_c + ppi_c | 0 | 1000 | 0.47 | -0.47 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:0) | AACPS3 | ACP_c + atp_c + hdca_c ⇋ ppi_c + palmACP_c + amp_c | 0 | 1000 | 0.63 | -0.63 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:1) | AACPS4 | ACP_c + hdcea_c + atp_c ⇋ ppi_c + hdeACP_c + amp_c | 0 | 1000 | 0.74 | -0.74 |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | -0.79 |
| Nucleotide Salvage Pathway | cytidylate kinase (CMP) | CYTK1 | cmp_c + atp_c ⇋ cdp_c + adp_c | -1000 | 1000 | 0.89 | -0.89 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:CDP) | NDPK3 | cdp_c + atp_c ⇋ adp_c + ctp_c | -1000 | 1000 | 0.89 | -0.89 |
| Arginine and Proline Metabolism | glutamate 5-kinase | GLU5K | glu_L_c + atp_c ⇋ adp_c + glu5p_c | 0 | 1000 | 1.1 | -1.1 |
| Alanine and Aspartate Metabolism | asparagine synthetase | ASNS2 | nh4_c + asp_L_c + atp_c ⇋ ppi_c + h_c + asn_L_c + amp_c | 0 | 1000 | 1.2 | -1.2 |
| Nucleotide Salvage Pathway | guanylate kinase (GMP:ATP) | GK1 | gmp_c + atp_c ⇋ adp_c + gdp_c | -1000 | 1000 | 1.2 | -1.2 |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | -1.2 |
| Cysteine Metabolism | Sulfate adenyltransferase | SADT2 | so4_c + atp_c + h2o_c + gtp_c ⇋ aps_c + ppi_c + pi_c + gdp_c | 0 | 1000 | 1.2 | -1.2 |
| Cysteine Metabolism | adenylyl-sulfate kinase | ADSK | atp_c + aps_c ⇋ paps_c + adp_c + h_c | 0 | 1000 | 1.2 | -1.2 |
| Arginine and Proline Metabolism | argininosuccinate synthase | ARGSS | asp_L_c + citr_L_c + atp_c ⇋ amp_c + argsuc_c + h_c + ppi_c | 0 | 1000 | 1.5 | -1.5 |
| Arginine and Proline Metabolism | acetylglutamate kinase | ACGK | atp_c + acglu_c ⇋ adp_c + acg5p_c | 0 | 1000 | 1.5 | -1.5 |
| Nucleotide Salvage Pathway | UMP kinase | UMPK | atp_c + ump_c ⇋ udp_c + adp_c | -1000 | 1000 | 1.9 | -1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate kinase | SHKK | skm_c + atp_c ⇋ skm5p_c + adp_c + h_c | 0 | 1000 | 1.9 | -1.9 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:UDP) | NDPK2 | udp_c + atp_c ⇋ adp_c + utp_c | -1000 | 1000 | 2.1 | -2.1 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase | AIRC2 | hco3_c + air_c + atp_c ⇋ 5caiz_c + adp_c + h_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolesuccinocarboxamide synthase | PRASCSi | asp_L_c + 5aizc_c + atp_c ⇋ adp_c + 25aics_c + h_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide synthase | PRAGSr | gly_c + pram_c + atp_c ⇋ adp_c + h_c + gar_c + pi_c | -1000 | 1000 | 2.2 | -2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole synthase | PRAIS | fpram_c + atp_c ⇋ air_c + adp_c + pi_c + 2 h_c | 0 | 1000 | 2.2 | -2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Citric Acid Cycle | succinyl-CoA synthetase (ADP-forming) | SUCOAS | coa_c + atp_c + succ_c ⇋ adp_c + pi_c + succoa_c | -1000 | 1000 | 2.6 | -2.6 |
| Pyruvate Metabolism | acetate kinase | ACKr | ac_c + atp_c ⇋ actp_c + adp_c | -1000 | 1000 | 2.9 | -2.9 |
| Unassigned | Carbamate kinase | CBMKr | nh4_c + co2_c + atp_c ⇋ cbp_c + 2 h_c + adp_c | -1000 | 1000 | 3.1 | -3.1 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:GDP) | NDPK1 | atp_c + gdp_c ⇋ adp_c + gtp_c | -1000 | 1000 | 3.8 | -3.8 |
| Histidine Metabolism | phosphoribosylpyrophosphate synthetase | PRPPS | atp_c + r5p_c ⇋ amp_c + h_c + prpp_c | -1000 | 1000 | 4.6 | -4.6 |
| Glutamate Metabolism | glutamine synthetase | GLNS | atp_c + glu_L_c + nh4_c ⇋ h_c + adp_c + pi_c + gln_L_c | 0 | 1000 | 8.9 | -8.9 |
| PRK+RuBisCO | PRK+RBC | co2_c + atp_c + ru5p_D_c + h2o_c ⇋ 3 h_c + adp_c + 2 3pg_c | 0 | 1000 | 36 | -36 | |
| Glycolysis/Gluconeogenesis | phosphoglycerate kinase | PGK | atp_c + 3pg_c ⇋ 13dpg_c + adp_c | -1000 | 1000 | 71 | -71 |
| Threonine and Lysine Metabolism | homoserine kinase | HSK | hom_L_c + atp_c ⇋ phom_c + adp_c + h_c | 0 | 1000 | 1.3e+02 | -1.3e+02 |
| Threonine and Lysine Metabolism | aspartate kinase | ASPK | asp_L_c + atp_c ⇋ 4pasp_c + adp_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Glycolysis/Gluconeogenesis | phosphoenolpyruvate synthase | PPS | pyr_c + h2o_c + atp_c ⇋ amp_c + pep_c + 2 h_c + pi_c | 0 | 1000 | 1.4e+02 | -1.4e+02 |
| Nucleotide Salvage Pathway | adenylate kinase | ADK1 | atp_c + amp_c ⇋ 2 adp_c | -1000 | 1000 | 1.6e+02 | -1.6e+02 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -2.7e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxybutanoyl-CoA) | ECOAH1 | 3hbcoa_c ⇋ h2o_c + b2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (butanoyl-CoA) | ACOAD1f | b2coa_c + fadh2_c ⇋ fad_c + btcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdenum cofactor synthase | BMOCOS | mptamp_c + moco_c ⇋ bmoco_c + cu2_c + amp_c | 0 | 1000 | 0.0006 | 0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase (single GDP) | BMOGDS1 | bmoco_c + h_c + gtp_c ⇋ bmoco1gdp_c + ppi_c | 0 | 1000 | 0.0006 | -0.0006 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase (single GDP) | BMOGDS1 | bmoco_c + h_c + gtp_c ⇋ bmoco1gdp_c + ppi_c | 0 | 1000 | 0.0006 | 0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase | BMOGDS2 | bmoco1gdp_c + h_c + gtp_c ⇋ ppi_c + bmocogdp_c | 0 | 1000 | 0.0006 | -0.0006 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase | BMOGDS2 | bmoco1gdp_c + h_c + gtp_c ⇋ ppi_c + bmocogdp_c | 0 | 1000 | 0.0006 | 0.0006 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0006 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (butanoyl-CoA) | ACOAD1f | b2coa_c + fadh2_c ⇋ fad_c + btcoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (butanoyl-CoA) (r) | ACACT2r | btcoa_c + accoa_c ⇋ coa_c + 3ohcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Biotin synthase | BTS5 | 2fe2s_c + amet_c + dtbt_c ⇋ 2fe1s_c + met_L_c + h_c + btn_c + dad_5_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | calcium / sodium antiporter (1:1) | CAt6pp | ca2_p + na1_c ⇋ na1_p + ca2_c | -1000 | 1000 | 0.026 | 0.026 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | aspartate carbamoyltransferase | ASPCT | cbp_c + asp_L_c ⇋ h_c + pi_c + cbasp_c | 0 | 1000 | 1.6 | 1.6 |
| Purine and Pyrimidine Biosynthesis | dihydroorotase | DHORTS | h_c + cbasp_c ⇋ dhor_S_c + h2o_c | -1000 | 1000 | 1.6 | -1.6 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Unassigned | Carbamate kinase | CBMKr | nh4_c + co2_c + atp_c ⇋ cbp_c + 2 h_c + adp_c | -1000 | 1000 | 3.1 | 3.1 |
| Arginine and Proline Metabolism | ornithine carbamoyltransferase | OCBT | cbp_c + orn_c ⇋ citr_L_c + h_c + pi_c | -1000 | 1000 | 1.5 | -1.5 |
| Purine and Pyrimidine Biosynthesis | aspartate carbamoyltransferase | ASPCT | cbp_c + asp_L_c ⇋ h_c + pi_c + cbasp_c | 0 | 1000 | 1.6 | -1.6 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | cytidylate kinase (CMP) | CYTK1 | cmp_c + atp_c ⇋ cdp_c + adp_c | -1000 | 1000 | 0.89 | 0.89 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:CDP) | NDPK3 | cdp_c + atp_c ⇋ adp_c + ctp_c | -1000 | 1000 | 0.89 | -0.89 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:1) | DASYN161 | pa161_c + ctp_c + h_c ⇋ ppi_c + cdpdhdec9eg_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:1) | PSSA161 | cdpdhdec9eg_c + ser_L_c ⇋ cmp_c + ps161_c + h_c | 0 | 1000 | 0.37 | -0.37 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:0) | DASYN160 | pa160_c + ctp_c + h_c ⇋ ppi_c + cdpdhdecg_c | 0 | 1000 | 0.31 | 0.31 |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:0) | PSSA160 | cdpdhdecg_c + ser_L_c ⇋ ps160_c + cmp_c + h_c | 0 | 1000 | 0.31 | -0.31 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | chorismate synthase | CHORS | 3psme_c ⇋ chor_c + pi_c | 0 | 1000 | 1.9 | 1.9 |
| Cofactor and Prosthetic Group Biosynthesis | Chorismate pyruvate lyase | CHRPL | chor_c ⇋ 4hbz_c + pyr_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-4-deoxychorismate synthase | ADCS | chor_c + gln_L_c ⇋ 4adcho_c + glu_L_c | 0 | 1000 | 0.0033 | -0.0033 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate synthase | ANS | chor_c + gln_L_c ⇋ pyr_c + h_c + anth_c + glu_L_c | 0 | 1000 | 0.28 | -0.28 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | chorismate mutase | CHORM | chor_c ⇋ pphn_c | 0 | 1000 | 1.6 | -1.6 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Citric Acid Cycle | citrate synthase | CS | h2o_c + oaa_c + accoa_c ⇋ coa_c + cit_c + h_c | 0 | 1000 | 5.3 | 5.3 |
| Citric Acid Cycle | aconitase (half-reaction A, Citrate hydro-lyase) | ACONTa | cit_c ⇋ h2o_c + acon_C_c | -1000 | 1000 | 5.3 | -5.3 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | ornithine carbamoyltransferase | OCBT | cbp_c + orn_c ⇋ citr_L_c + h_c + pi_c | -1000 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | argininosuccinate synthase | ARGSS | asp_L_c + citr_L_c + atp_c ⇋ amp_c + argsuc_c + h_c + ppi_c | 0 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-manno-octulosonate cytidylyltransferase | KDOCT2 | ctp_c + kdo_c ⇋ ckdo_c + ppi_c | 0 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT2 | ckdo_c + kdolipid4_c ⇋ h_c + cmp_c + kdo2lipid4_c | 0 | 1000 | 0.096 | -0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT | ckdo_c + lipidA_c ⇋ kdolipid4_c + cmp_c + h_c | 0 | 1000 | 0.096 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | chloride transport out via proton antiport (2:1) (periplasm) | CLt3_2pp | h_c + 2 cl_p ⇋ h_p + 2 cl_c | 0 | 1000 | 0.013 | 0.026 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:1) | PSSA161 | cdpdhdec9eg_c + ser_L_c ⇋ cmp_c + ps161_c + h_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:0) | PSSA160 | cdpdhdecg_c + ser_L_c ⇋ ps160_c + cmp_c + h_c | 0 | 1000 | 0.31 | 0.31 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT | ckdo_c + lipidA_c ⇋ kdolipid4_c + cmp_c + h_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT2 | ckdo_c + kdolipid4_c ⇋ h_c + cmp_c + kdo2lipid4_c | 0 | 1000 | 0.096 | 0.096 |
| Cofactor and Prosthetic Group Biosynthesis | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | MECDPS | 2p4c2me_c ⇋ 2mecdp_c + cmp_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenate-cysteine ligase | PPNCL2 | cys_L_c + 4ppan_c + ctp_c ⇋ 4ppcys_c + ppi_c + cmp_c + h_c | 0 | 1000 | 0.0028 | 0.0028 |
| Nucleotide Salvage Pathway | cytidylate kinase (CMP) | CYTK1 | cmp_c + atp_c ⇋ cdp_c + adp_c | -1000 | 1000 | 0.89 | -0.89 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Inner Membrane | CO2 transporter via diffusion (periplasm) | CO2tpp | co2_p ⇋ co2_c | -1000 | 1000 | 2e+02 | 2e+02 |
| Folate Metabolism | Glycine Cleavage System | GLYCL | gly_c + nad_c + thf_c ⇋ mlthf_c + nadh_c + co2_c + nh4_c | 0 | 1000 | 63 | 63 |
| Citric Acid Cycle | isocitrate dehydrogenase (NADP) | ICDHyr | nadp_c + icit_c ⇋ akg_c + nadph_c + co2_c | -1000 | 1000 | 5.3 | 5.3 |
| Valine, Leucine, and Isoleucine Metabolism | acetolactate synthase | ACLS | h_c + 2 pyr_c ⇋ alac_S_c + co2_c | 0 | 1000 | 4.3 | 4.3 |
| Valine, Leucine, and Isoleucine Metabolism | 2-Oxo-4-methyl-3-carboxypentanoate decarboxylation | OMCDC | 3c4mop_c + h_c ⇋ co2_c + 4mop_c | 0 | 1000 | 2.2 | 2.2 |
| Threonine and Lysine Metabolism | diaminopimelate decarboxylase | DAPDC | h_c + 26dap_M_c ⇋ co2_c + lys_L_c | 0 | 1000 | 1.7 | 1.7 |
| Purine and Pyrimidine Biosynthesis | orotidine-5'-phosphate decarboxylase | OMPDC | h_c + orot5p_c ⇋ co2_c + ump_c | 0 | 1000 | 1.6 | 1.6 |
| Valine, Leucine, and Isoleucine Metabolism | 2-aceto-2-hydroxybutanoate synthase | ACHBS | pyr_c + 2obut_c + h_c ⇋ 2ahbut_c + co2_c | 0 | 1000 | 1.4 | 1.4 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydratase | PPNDH | h_c + pphn_c ⇋ phpyr_c + co2_c + h2o_c | 0 | 1000 | 0.91 | 0.91 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydrogenase | PPND | nad_c + pphn_c ⇋ nadh_c + co2_c + 34hpp_c | 0 | 1000 | 0.68 | 0.68 |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] synthase (n-C14:0) | 3OAS140 | ddcaACP_c + h_c + malACP_c ⇋ ACP_c + 3omrsACP_c + co2_c | 0 | 1000 | 0.38 | 0.38 |
| Glycerophospholipid Metabolism | Phosphatidylserine decarboxylase (n-C16:1) | PSD161 | ps161_c + h_c ⇋ co2_c + pe161_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | Phosphatidylserine decarboxylase (n-C16:0) | PSD160 | h_c + ps160_c ⇋ pe160_c + co2_c | 0 | 1000 | 0.31 | 0.31 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | indole-3-glycerol-phosphate synthase | IGPS | 2cpr5p_c + h_c ⇋ co2_c + 3ig3p_c + h2o_c | 0 | 1000 | 0.28 | 0.28 |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose 5-phosphate synthase | DXPS | pyr_c + g3p_c + h_c ⇋ dxyl5p_c + co2_c | 0 | 1000 | 0.014 | 0.014 |
| Cofactor and Prosthetic Group Biosynthesis | nicotinate-nucleotide diphosphorylase (carboxylating) | NNDPR | quln_c + 2 h_c + prpp_c ⇋ nicrnt_c + ppi_c + co2_c | 0 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen decarboxylase (uroporphyrinogen III) | UPPDC1 | uppg3_c + 4 h_c ⇋ cpppg3_c + 4 co2_c | 0 | 1000 | 0.0011 | 0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | aspartate 1-decarboxylase | ASP1DC | asp_L_c + h_c ⇋ ala_B_c + co2_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenoylcysteine decarboxylase | PPCDC | 4ppcys_c + h_c ⇋ co2_c + pan4p_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | coproporphyrinogen oxidase (O2 required) | CPPPGO | o2_c + 2 h_c + cpppg3_c ⇋ pppg9_c + 2 co2_c + 2 h2o_c | 0 | 1000 | 0.0011 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Octaprenyl-hydroxybenzoate decarboxylase | OPHBDC | h_c + 3ophb_c ⇋ 2oph_c + co2_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester synthase | OPMEACPS | gmeACP_c + h_c + malACP_c ⇋ ACP_c + opmeACP_c + co2_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 8-amino-7-oxononanoate synthase | AOXSr2 | pimACP_c + ala_L_c ⇋ ACP_c + co2_c + 8aonn_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester synthase | OGMEACPS | h_c + malACP_c + malcoame_c ⇋ ogmeACP_c + co2_c + coa_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | dethiobiotin synthase | DBTS | dann_c + co2_c + atp_c ⇋ adp_c + 3 h_c + pi_c + dtbt_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Unassigned | HCO3 equilibration reaction | HCO3E | co2_c + h2o_c ⇋ h_c + hco3_c | -1000 | 1000 | 2.6 | -2.6 |
| Unassigned | Carbamate kinase | CBMKr | nh4_c + co2_c + atp_c ⇋ cbp_c + 2 h_c + adp_c | -1000 | 1000 | 3.1 | -3.1 |
| PRK+RuBisCO | PRK+RBC | co2_c + atp_c + ru5p_D_c + h2o_c ⇋ 3 h_c + adp_c + 2 3pg_c | 0 | 1000 | 36 | -36 | |
| Pyruvate Metabolism | pyruvate synthase | POR5 | h_c + 2 flxr_c + co2_c + accoa_c ⇋ coa_c + 2 flxso_c + pyr_c | -1000 | 1000 | 1e+02 | -1e+02 |
| Anaplerotic Reactions | phosphoenolpyruvate carboxylase | PPC | h2o_c + co2_c + pep_c ⇋ h_c + pi_c + oaa_c | 0 | 1000 | 1.4e+02 | -1.4e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pyruvate Metabolism | pyruvate synthase | POR5 | h_c + 2 flxr_c + co2_c + accoa_c ⇋ coa_c + 2 flxso_c + pyr_c | -1000 | 1000 | 1e+02 | 1e+02 |
| Citric Acid Cycle | citrate synthase | CS | h2o_c + oaa_c + accoa_c ⇋ coa_c + cit_c + h_c | 0 | 1000 | 5.3 | 5.3 |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate synthase | IPPS | 3mob_c + h2o_c + accoa_c ⇋ coa_c + h_c + 3c3hmp_c | 0 | 1000 | 2.2 | 2.2 |
| Threonine and Lysine Metabolism | tetrahydrodipicolinate succinylase | THDPS | thdp_c + h2o_c + succoa_c ⇋ coa_c + sl2a6o_c | 0 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acetyltransferase | ACACT1r | 2 accoa_c ⇋ aacoa_c + coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (octanoyl-CoA) (r) | ACACT4r | occoa_c + accoa_c ⇋ 3odcoa_c + coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (decanoyl-CoA) (r) | ACACT5r | accoa_c + dcacoa_c ⇋ 3oddcoa_c + coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (hexanoyl-CoA) (r) | ACACT3r | hxcoa_c + accoa_c ⇋ coa_c + 3oocoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (butanoyl-CoA) (r) | ACACT2r | btcoa_c + accoa_c ⇋ coa_c + 3ohcoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Arginine and Proline Metabolism | N-acetylglutamate synthase | ACGS | glu_L_c + accoa_c ⇋ coa_c + h_c + acglu_c | 0 | 1000 | 1.5 | 1.5 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (tetradecanoyl-CoA) (r) | ACACT7r | tdcoa_c + accoa_c ⇋ coa_c + 3ohdcoa_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (dodecanoyl-CoA) (r) | ACACT6r | ddcacoa_c + accoa_c ⇋ coa_c + 3otdcoa_c | -1000 | 1000 | 1.4 | 1.4 |
| Cysteine Metabolism | serine O-acetyltransferase | SERAT | accoa_c + ser_L_c ⇋ acser_c + coa_c | -1000 | 1000 | 1.2 | 1.2 |
| Methionine Metabolism | homoserine O-succinyltransferase | HSST | hom_L_c + succoa_c ⇋ suchms_c + coa_c | 0 | 1000 | 0.76 | 0.76 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecenoate) | FACOAE161 | hdcoa_c + h2o_c ⇋ coa_c + hdcea_c + h_c | 0 | 1000 | 0.74 | 0.74 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecanoate) | FACOAE160 | pmtcoa_c + h2o_c ⇋ coa_c + h_c + hdca_c | 0 | 1000 | 0.63 | 0.63 |
| Cell Envelope Biosynthesis | glucosamine-1-phosphate N-acetyltransferase | G1PACT | gam1p_c + accoa_c ⇋ coa_c + h_c + acgam1p_c | 0 | 1000 | 0.47 | 0.47 |
| Membrane Lipid Metabolism | Malonyl-CoA-ACP transacylase | MCOATA | ACP_c + malcoa_c ⇋ coa_c + malACP_c | -1000 | 1000 | 0.38 | 0.38 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (dodecanoate) | FACOAE120 | ddcacoa_c + h2o_c ⇋ coa_c + ddca_c + h_c | 0 | 1000 | 0.38 | 0.38 |
| Anaplerotic Reactions | malate synthase | MALS | glx_c + accoa_c + h2o_c ⇋ coa_c + h_c + mal_L_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dephospho-CoA kinase | DPCOAK | dpcoa_c + atp_c ⇋ coa_c + adp_c + h_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester synthase | OGMEACPS | h_c + malACP_c + malcoame_c ⇋ ogmeACP_c + co2_c + coa_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0028 | |
| Citric Acid Cycle | succinyl-CoA synthetase (ADP-forming) | SUCOAS | coa_c + atp_c + succ_c ⇋ adp_c + pi_c + succoa_c | -1000 | 1000 | 2.6 | -2.6 |
| Pyruvate Metabolism | phosphotransacetylase | PTAr | coa_c + actp_c ⇋ pi_c + accoa_c | -1000 | 1000 | 2.9 | -2.9 |
| Glycine and Serine Metabolism | glycine C-acetyltransferase | GLYAT | coa_c + 2aobut_c ⇋ gly_c + accoa_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | cobalt transport in via permease (no H+) | COBALT2tpp | cobalt2_p ⇋ cobalt2_c | 0 | 1000 | 0.00012 | 0.00012 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.00012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | cyclic pyranopterin monophosphate synthase | CPMPS | gtp_c + h2o_c ⇋ ppi_c + cpmp_c | 0 | 1000 | 0.0012 | 0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase | MPTS | 2 moadcosh_c + cu2_c + cpmp_c ⇋ mpt_c + 5 h_c + 2 moadcoo_c | 0 | 1000 | 0.0012 | -0.0012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen decarboxylase (uroporphyrinogen III) | UPPDC1 | uppg3_c + 4 h_c ⇋ cpppg3_c + 4 co2_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | coproporphyrinogen oxidase (O2 required) | CPPPGO | o2_c + 2 h_c + cpppg3_c ⇋ pppg9_c + 2 co2_c + 2 h2o_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:CDP) | NDPK3 | cdp_c + atp_c ⇋ adp_c + ctp_c | -1000 | 1000 | 0.89 | 0.89 |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | 0.79 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenate-cysteine ligase | PPNCL2 | cys_L_c + 4ppan_c + ctp_c ⇋ 4ppcys_c + ppi_c + cmp_c + h_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase | MEPCT | 2me4p_c + h_c + ctp_c ⇋ 4c2me_c + ppi_c | 0 | 1000 | 0.012 | -0.012 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (CTP) (flavodoxin) | RNTR3c2 | 2 h_c + ctp_c + 2 flxr_c ⇋ dctp_c + h2o_c + 2 flxso_c | 0 | 1000 | 0.13 | -0.13 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-manno-octulosonate cytidylyltransferase | KDOCT2 | ctp_c + kdo_c ⇋ ckdo_c + ppi_c | 0 | 1000 | 0.19 | -0.19 |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:0) | DASYN160 | pa160_c + ctp_c + h_c ⇋ ppi_c + cdpdhdecg_c | 0 | 1000 | 0.31 | -0.31 |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:1) | DASYN161 | pa161_c + ctp_c + h_c ⇋ ppi_c + cdpdhdec9eg_c | 0 | 1000 | 0.37 | -0.37 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.66 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | copper transport in via permease (no H+) | CU2tpp | cu2_p ⇋ cu2_c | 0 | 1000 | 0.0035 | 0.0035 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdenum cofactor synthase | BMOCOS | mptamp_c + moco_c ⇋ bmoco_c + cu2_c + amp_c | 0 | 1000 | 0.0006 | 0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | molybdenum cofactor synthase | MOCOS | mptamp_c + mobd_c + 2 h_c ⇋ h2o_c + amp_c + moco_c + cu2_c | 0 | 1000 | 0.0006 | 0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase | MPTS | 2 moadcosh_c + cu2_c + cpmp_c ⇋ mpt_c + 5 h_c + 2 moadcoo_c | 0 | 1000 | 0.0012 | -0.0012 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0035 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cysteine Metabolism | cysteine synthase | CYSS | acser_c + h2s_c ⇋ ac_c + cys_L_c + h_c | 0 | 1000 | 1.2 | 1.2 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenate-cysteine ligase | PPNCL2 | cys_L_c + 4ppan_c + ctp_c ⇋ 4ppcys_c + ppi_c + cmp_c + h_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | ISC Cysteine desulfuration | ICYSDS | iscs_c + cys_L_c ⇋ ala_L_c + iscssh_c | 0 | 1000 | 0.0089 | -0.0089 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.45 | |
| Methionine Metabolism | O-succinylhomoserine lyase (L-cysteine) | SHSL1 | cys_L_c + suchms_c ⇋ cyst_L_c + h_c + succ_c | 0 | 1000 | 0.76 | -0.76 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | O-succinylhomoserine lyase (L-cysteine) | SHSL1 | cys_L_c + suchms_c ⇋ cyst_L_c + h_c + succ_c | 0 | 1000 | 0.76 | 0.76 |
| Methionine Metabolism | cystathionine b-lyase | CYSTL | cyst_L_c + h2o_c ⇋ pyr_c + hcys_L_c + nh4_c | 0 | 1000 | 0.76 | -0.76 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Biotin synthase | BTS5 | 2fe2s_c + amet_c + dtbt_c ⇋ 2fe1s_c + met_L_c + h_c + btn_c + dad_5_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 5'-deoxyadenosine nuclosidase | 5DOAN | dad_5_c + h2o_c ⇋ 5drib_c + ade_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | adenosylmethionine-8-amino-7-oxononanoate transaminase | AMAOTr | amet_c + 8aonn_c ⇋ dann_c + amob_c | -1000 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | dethiobiotin synthase | DBTS | dann_c + co2_c + atp_c ⇋ adp_c + 3 h_c + pi_c + dtbt_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (ATP) (flavodoxin) | RNTR1c2 | atp_c + 2 h_c + 2 flxr_c ⇋ datp_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.13 | 0.13 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3,4-Dihydroxy-2-butanone-4-phosphate synthase | DB4PS | ru5p_D_c ⇋ db4p_c + for_c + h_c | 0 | 1000 | 0.0044 | 0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin synthase | RBFSa | db4p_c + 4r5au_c ⇋ dmlz_c + pi_c + 2 h2o_c | 0 | 1000 | 0.0044 | -0.0044 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxydecanoyl-CoA) | ECOAH4 | 3hdcoa_c ⇋ h2o_c + dc2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (decanoyl-CoA) | ACOAD4f | dc2coa_c + fadh2_c ⇋ dcacoa_c + fad_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (decanoyl-CoA) | ACOAD4f | dc2coa_c + fadh2_c ⇋ dcacoa_c + fad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (decanoyl-CoA) (r) | ACACT5r | accoa_c + dcacoa_c ⇋ 3oddcoa_c + coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate synthase | ADSS | asp_L_c + gtp_c + imp_c ⇋ 2 h_c + dcamp_c + pi_c + gdp_c | 0 | 1000 | 1.5 | 1.5 |
| Purine and Pyrimidine Biosynthesis | adenylsuccinate lyase | ADSL1r | dcamp_c ⇋ amp_c + fum_c | -1000 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (CTP) (flavodoxin) | RNTR3c2 | 2 h_c + ctp_c + 2 flxr_c ⇋ dctp_c + h2o_c + 2 flxso_c | 0 | 1000 | 0.13 | 0.13 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxydodecanoyl-CoA) | ECOAH5 | 3hddcoa_c ⇋ h2o_c + dd2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (dodecanoyl-CoA) | ACOAD5f | dd2coa_c + fadh2_c ⇋ fad_c + ddcacoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (dodecanoate) | FACOAE120 | ddcacoa_c + h2o_c ⇋ coa_c + ddca_c + h_c | 0 | 1000 | 0.38 | 0.38 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C12:0) | AACPS7 | ACP_c + ddca_c + atp_c ⇋ ddcaACP_c + ppi_c + amp_c | 0 | 1000 | 0.38 | -0.38 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C12:0) | AACPS7 | ACP_c + ddca_c + atp_c ⇋ ddcaACP_c + ppi_c + amp_c | 0 | 1000 | 0.38 | 0.38 |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] synthase (n-C14:0) | 3OAS140 | ddcaACP_c + h_c + malACP_c ⇋ ACP_c + 3omrsACP_c + co2_c | 0 | 1000 | 0.38 | -0.38 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (dodecanoyl-CoA) | ACOAD5f | dd2coa_c + fadh2_c ⇋ fad_c + ddcacoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (dodecanoate) | FACOAE120 | ddcacoa_c + h2o_c ⇋ coa_c + ddca_c + h_c | 0 | 1000 | 0.38 | -0.38 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (dodecanoyl-CoA) (r) | ACACT6r | ddcacoa_c + accoa_c ⇋ coa_c + 3otdcoa_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | ribonucleoside-diphosphate reductase (GDP) | RNDR2 | gdp_c + trdrd_c ⇋ dgdp_c + h2o_c + trdox_c | 0 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:dGDP) | NDPK5 | atp_c + dgdp_c ⇋ dgtp_c + adp_c | -1000 | 1000 | 0.13 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:dGDP) | NDPK5 | atp_c + dgdp_c ⇋ dgtp_c + adp_c | -1000 | 1000 | 0.13 | 0.13 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycolysis/Gluconeogenesis | triose-phosphate isomerase | TPI | g3p_c ⇋ dhap_c | -1000 | 1000 | 29 | 29 |
| Cofactor and Prosthetic Group Biosynthesis | quinolinate synthase | QULNS | dhap_c + iasp_c ⇋ quln_c + pi_c + 2 h2o_c | 0 | 1000 | 0.011 | -0.011 |
| Alternate Carbon Metabolism | glycerol-3-phosphate dehydrogenase (NADP) | G3PD2 | h_c + nadph_c + dhap_c ⇋ glyc3p_c + nadp_c | -1000 | 1000 | 0.69 | -0.69 |
| Glycolysis/Gluconeogenesis | fructose-bisphosphate aldolase | FBA | g3p_c + dhap_c ⇋ fdp_c | -1000 | 1000 | 28 | -28 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | thymidylate synthase | TMDS | mlthf_c + dump_c ⇋ dhf_c + dtmp_c | 0 | 1000 | 0.13 | 0.13 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate synthase | DHFS | glu_L_c + atp_c + dhpt_c ⇋ h_c + dhf_c + adp_c + pi_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate reductase | DHFR | h_c + dhf_c + nadph_c ⇋ nadp_c + thf_c | -1000 | 1000 | 0.13 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin monophosphate dephosphorylase | DNMPPA | dhpmp_c + h2o_c ⇋ dhnpt_c + pi_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydroneopterin aldolase reversible | DHNPA2r | dhnpt_c ⇋ 6hmhpt_c + gcald_c | -1000 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | dihydroorotase | DHORTS | h_c + cbasp_c ⇋ dhor_S_c + h2o_c | -1000 | 1000 | 1.6 | 1.6 |
| Purine and Pyrimidine Biosynthesis | dihydoorotic acid dehydrogenase (quinone8) | DHORD2 | q8_c + dhor_S_c ⇋ orot_c + q8h2_c | 0 | 1000 | 1.6 | -1.6 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin triphosphate pyrophosphatase | DNTPPA | ahdt_c + h2o_c ⇋ ppi_c + dhpmp_c + h_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin monophosphate dephosphorylase | DNMPPA | dhpmp_c + h2o_c ⇋ dhnpt_c + pi_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | dihydropteroate synthase | DHPS2 | 6hmhptpp_c + 4abz_c ⇋ dhpt_c + ppi_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate synthase | DHFS | glu_L_c + atp_c + dhpt_c ⇋ h_c + dhf_c + adp_c + pi_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | S-ribosylhomocysteine cleavage enzyme | RHCCE | rhcys_c ⇋ dhptd_c + hcys_L_c | 0 | 1000 | 0.0022 | 0.0022 |
| Methionine Metabolism | 4,5-dihydroxy-2,3-pentanedione cyclization (spontaneous) | DHPTDCs2 | dhptd_c ⇋ mdhdhf_c | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin synthase | RBFSa | db4p_c + 4r5au_c ⇋ dmlz_c + pi_c + 2 h2o_c | 0 | 1000 | 0.0044 | 0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin synthase | RBFSb | 2 dmlz_c ⇋ 4r5au_c + ribflv_c | 0 | 1000 | 0.0022 | -0.0044 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (dmpp) | DMPPS | h_c + h2mb4p_c + nadh_c ⇋ dmpp_c + nad_c + h2o_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | dimethylallyltranstransferase | DMATT | dmpp_c + ipdp_c ⇋ grdp_c + ppi_c | 0 | 1000 | 0.0014 | -0.0014 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | nicotinate-nucleotide adenylyltransferase | NNATr | nicrnt_c + h_c + atp_c ⇋ ppi_c + dnad_c | -1000 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | NAD synthase (nh3) | NADS1 | nh4_c + dnad_c + atp_c ⇋ h_c + nad_c + ppi_c + amp_c | 0 | 1000 | 0.011 | -0.011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | pantetheine-phosphate adenylyltransferase | PTPATi | h_c + atp_c + pan4p_c ⇋ ppi_c + dpcoa_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | dephospho-CoA kinase | DPCOAK | dpcoa_c + atp_c ⇋ coa_c + adp_c + h_c | 0 | 1000 | 0.0028 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen methyltransferase | UPP3MT | uppg3_c + 2 amet_c ⇋ dscl_c + 2 ahcys_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin dehydrogenase (NAD) | SHCHD2 | dscl_c + nad_c ⇋ nadh_c + scl_c + h_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | dethiobiotin synthase | DBTS | dann_c + co2_c + atp_c ⇋ adp_c + 3 h_c + pi_c + dtbt_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Biotin synthase | BTS5 | 2fe2s_c + amet_c + dtbt_c ⇋ 2fe1s_c + met_L_c + h_c + btn_c + dad_5_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | dTMP kinase | DTMPK | dtmp_c + atp_c ⇋ adp_c + dtdp_c | -1000 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:dTDP) | NDPK4 | dtdp_c + atp_c ⇋ adp_c + dttp_c | -1000 | 1000 | 0.13 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | thymidylate synthase | TMDS | mlthf_c + dump_c ⇋ dhf_c + dtmp_c | 0 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | dTMP kinase | DTMPK | dtmp_c + atp_c ⇋ adp_c + dtdp_c | -1000 | 1000 | 0.13 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:dTDP) | NDPK4 | dtdp_c + atp_c ⇋ adp_c + dttp_c | -1000 | 1000 | 0.13 | 0.13 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | dUTP diphosphatase | DUTPDP | h2o_c + dutp_c ⇋ ppi_c + dump_c + h_c | 0 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | thymidylate synthase | TMDS | mlthf_c + dump_c ⇋ dhf_c + dtmp_c | 0 | 1000 | 0.13 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (UTP) (flavodoxin) | RNTR4c2 | 2 h_c + utp_c + 2 flxr_c ⇋ h2o_c + 2 flxso_c + dutp_c | 0 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | dUTP diphosphatase | DUTPDP | h2o_c + dutp_c ⇋ ppi_c + dump_c + h_c | 0 | 1000 | 0.13 | -0.13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose 5-phosphate synthase | DXPS | pyr_c + g3p_c + h_c ⇋ dxyl5p_c + co2_c | 0 | 1000 | 0.014 | 0.014 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose reductoisomerase | DXPRIi | dxyl5p_c + h_c + nadph_c ⇋ 2me4p_c + nadp_c | 0 | 1000 | 0.012 | -0.012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pentose Phosphate Pathway | transketolase2 | TKT2 | g3p_c + f6p_c ⇋ xu5p_D_c + e4p_c | -1000 | 1000 | 15 | 15 |
| Cofactor and Prosthetic Group Biosynthesis | Erythrose 4-phosphate dehydrogenase | E4PD | nad_c + h2o_c + e4p_c ⇋ nadh_c + 4per_c + 2 h_c | -1000 | 1000 | 0.0011 | -0.0011 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase | DDPA | e4p_c + h2o_c + pep_c ⇋ 2dda7p_c + pi_c | 0 | 1000 | 1.9 | -1.9 |
| Pentose Phosphate Pathway | transaldolase | TALA | f6p_c + e4p_c ⇋ g3p_c + s7p_c | -1000 | 1000 | 13 | -13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester dehydratase | OGMEACPD | hgmeACP_c ⇋ h2o_c + egmeACP_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Enoylglutaryl-[ACP] methyl ester reductase | EGMEACPR | egmeACP_c + h_c + nadph_c ⇋ nadp_c + gmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | Imidazole-glycerol-3-phosphate synthase | IG3PS | prlp_c + gln_L_c ⇋ eig3p_c + glu_L_c + h_c + aicar_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | imidazoleglycerol-phosphate dehydratase | IGPDH | eig3p_c ⇋ imacp_c + h2o_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester dehydratase | OPMEACPD | hpmeACP_c ⇋ epmeACP_c + h2o_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Enoylpimeloyl-[ACP] methyl ester reductase | EPMEACPR | h_c + epmeACP_c + nadph_c ⇋ nadp_c + pmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycolysis/Gluconeogenesis | fructose-bisphosphatase | FBP | h2o_c + fdp_c ⇋ pi_c + f6p_c | 0 | 1000 | 28 | 28 |
| Cell Envelope Biosynthesis | glutamine-fructose-6-phosphate transaminase | GF6PTA | f6p_c + gln_L_c ⇋ gam6p_c + glu_L_c | 0 | 1000 | 0.47 | -0.47 |
| Pentose Phosphate Pathway | transaldolase | TALA | f6p_c + e4p_c ⇋ g3p_c + s7p_c | -1000 | 1000 | 13 | -13 |
| Pentose Phosphate Pathway | transketolase2 | TKT2 | g3p_c + f6p_c ⇋ xu5p_D_c + e4p_c | -1000 | 1000 | 15 | -15 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (decanoyl-CoA) | ACOAD4f | dc2coa_c + fadh2_c ⇋ dcacoa_c + fad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (butanoyl-CoA) | ACOAD1f | b2coa_c + fadh2_c ⇋ fad_c + btcoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (hexanoyl-CoA) | ACOAD2f | fadh2_c + hx2coa_c ⇋ hxcoa_c + fad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (dodecanoyl-CoA) | ACOAD5f | dd2coa_c + fadh2_c ⇋ fad_c + ddcacoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (octanoyl-CoA) | ACOAD3f | fadh2_c + oc2coa_c ⇋ occoa_c + fad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (tetradecanoyl-CoA) | ACOAD6f | td2coa_c + fadh2_c ⇋ tdcoa_c + fad_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (hexadecanoyl-CoA) | ACOAD7f | hdd2coa_c + fadh2_c ⇋ pmtcoa_c + fad_c | -1000 | 1000 | 0.63 | 0.63 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis | I2FE2SS | 2 fe2_c + iscu_c + fadh2_c + 2 iscssh_c ⇋ 6 h_c + iscu_2fe2s_c + fad_c + 2 iscs_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Reduction | I4FE4SR | iscu_2fe2s2_c + 2 h_c + fadh2_c ⇋ fad_c + iscu_4fe4s_c | 0 | 1000 | 0.0013 | 0.0013 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis II | I2FE2SS2 | 2 fe2_c + 2 iscssh_c + iscu_2fe2s_c + fadh2_c ⇋ fad_c + 2 iscs_c + 6 h_c + iscu_2fe2s2_c | 0 | 1000 | 0.0013 | 0.0013 |
| Cofactor and Prosthetic Group Biosynthesis | FMN adenylyltransferase | FMNAT | h_c + atp_c + fmn_c ⇋ fad_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 | |
| Cofactor and Prosthetic Group Biosynthesis | FAD reductase | FADRx | nadh_c + fad_c + h_c ⇋ nad_c + fadh2_c | 0 | 1000 | 11 | -11 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | FAD reductase | FADRx | nadh_c + fad_c + h_c ⇋ nad_c + fadh2_c | 0 | 1000 | 11 | 11 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Reduction | I4FE4SR | iscu_2fe2s2_c + 2 h_c + fadh2_c ⇋ fad_c + iscu_4fe4s_c | 0 | 1000 | 0.0013 | -0.0013 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis II | I2FE2SS2 | 2 fe2_c + 2 iscssh_c + iscu_2fe2s_c + fadh2_c ⇋ fad_c + 2 iscs_c + 6 h_c + iscu_2fe2s2_c | 0 | 1000 | 0.0013 | -0.0013 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis | I2FE2SS | 2 fe2_c + iscu_c + fadh2_c + 2 iscssh_c ⇋ 6 h_c + iscu_2fe2s_c + fad_c + 2 iscs_c | 0 | 1000 | 0.0014 | -0.0014 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (hexadecanoyl-CoA) | ACOAD7f | hdd2coa_c + fadh2_c ⇋ pmtcoa_c + fad_c | -1000 | 1000 | 0.63 | -0.63 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (tetradecanoyl-CoA) | ACOAD6f | td2coa_c + fadh2_c ⇋ tdcoa_c + fad_c | -1000 | 1000 | 1.4 | -1.4 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (octanoyl-CoA) | ACOAD3f | fadh2_c + oc2coa_c ⇋ occoa_c + fad_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (decanoyl-CoA) | ACOAD4f | dc2coa_c + fadh2_c ⇋ dcacoa_c + fad_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (hexanoyl-CoA) | ACOAD2f | fadh2_c + hx2coa_c ⇋ hxcoa_c + fad_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (dodecanoyl-CoA) | ACOAD5f | dd2coa_c + fadh2_c ⇋ fad_c + ddcacoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (butanoyl-CoA) | ACOAD1f | b2coa_c + fadh2_c ⇋ fad_c + btcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycolysis/Gluconeogenesis | fructose-bisphosphate aldolase | FBA | g3p_c + dhap_c ⇋ fdp_c | -1000 | 1000 | 28 | 28 |
| Glycolysis/Gluconeogenesis | fructose-bisphosphatase | FBP | h2o_c + fdp_c ⇋ pi_c + f6p_c | 0 | 1000 | 28 | -28 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | iron (+2) transport in via permease (no H+) | FE2tpp | fe2_p ⇋ fe2_c | 0 | 1000 | 0.079 | 0.079 |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin ferrochelatase | SHCHF | scl_c + fe2_c ⇋ sheme_c + 3 h_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Ferrochelatase | FCLT | ppp9_c + fe2_c ⇋ 2 h_c + pheme_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis II | I2FE2SS2 | 2 fe2_c + 2 iscssh_c + iscu_2fe2s_c + fadh2_c ⇋ fad_c + 2 iscs_c + 6 h_c + iscu_2fe2s2_c | 0 | 1000 | 0.0013 | -0.0026 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis | I2FE2SS | 2 fe2_c + iscu_c + fadh2_c + 2 iscssh_c ⇋ 6 h_c + iscu_2fe2s_c + fad_c + 2 iscs_c | 0 | 1000 | 0.0014 | -0.0028 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.033 | |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster repair | FESR | fe2_c + 3fe4s_c ⇋ 4fe4s_c | 0 | 1000 | 0.038 | -0.038 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster damage (peroxide, spontaneous) | FESD1s | 2 4fe4s_c + 2 h_c + h2o2_c ⇋ 2 h2o_c + 2 3fe4s_c + 2 fe3_c | 0 | 1000 | 0.019 | 0.038 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.038 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide formyltransferase | GARFT | 10fthf_c + gar_c ⇋ fgam_c + thf_c + h_c | -1000 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | GAR transformylase-T | GART | gar_c + for_c + atp_c ⇋ fgam_c + adp_c + h_c + pi_c | 0 | 1000 | 0.012 | 0.012 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Unassigned | flavodoxin reductase (NADPH) | FLDR2 | 2 flxso_c + nadph_c ⇋ h_c + nadp_c + 2 flxr_c | 0 | 1000 | 1e+02 | 2.1e+02 |
| Cofactor and Prosthetic Group Biosynthesis | 2C-methyl-D-erythritol 2,4 cyclodiphosphate dehydratase | MECDPDH5 | 2mecdp_c + h_c + 2 flxr_c ⇋ h2mb4p_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.012 | -0.024 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (UTP) (flavodoxin) | RNTR4c2 | 2 h_c + utp_c + 2 flxr_c ⇋ h2o_c + 2 flxso_c + dutp_c | 0 | 1000 | 0.13 | -0.26 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (ATP) (flavodoxin) | RNTR1c2 | atp_c + 2 h_c + 2 flxr_c ⇋ datp_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.13 | -0.26 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (CTP) (flavodoxin) | RNTR3c2 | 2 h_c + ctp_c + 2 flxr_c ⇋ dctp_c + h2o_c + 2 flxso_c | 0 | 1000 | 0.13 | -0.27 |
| Pyruvate Metabolism | pyruvate synthase | POR5 | h_c + 2 flxr_c + co2_c + accoa_c ⇋ coa_c + 2 flxso_c + pyr_c | -1000 | 1000 | 1e+02 | -2.1e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pyruvate Metabolism | pyruvate synthase | POR5 | h_c + 2 flxr_c + co2_c + accoa_c ⇋ coa_c + 2 flxso_c + pyr_c | -1000 | 1000 | 1e+02 | 2.1e+02 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (CTP) (flavodoxin) | RNTR3c2 | 2 h_c + ctp_c + 2 flxr_c ⇋ dctp_c + h2o_c + 2 flxso_c | 0 | 1000 | 0.13 | 0.27 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (UTP) (flavodoxin) | RNTR4c2 | 2 h_c + utp_c + 2 flxr_c ⇋ h2o_c + 2 flxso_c + dutp_c | 0 | 1000 | 0.13 | 0.26 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (ATP) (flavodoxin) | RNTR1c2 | atp_c + 2 h_c + 2 flxr_c ⇋ datp_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.13 | 0.26 |
| Cofactor and Prosthetic Group Biosynthesis | 2C-methyl-D-erythritol 2,4 cyclodiphosphate dehydratase | MECDPDH5 | 2mecdp_c + h_c + 2 flxr_c ⇋ h2mb4p_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.012 | 0.024 |
| Unassigned | flavodoxin reductase (NADPH) | FLDR2 | 2 flxso_c + nadph_c ⇋ h_c + nadp_c + 2 flxr_c | 0 | 1000 | 1e+02 | -2.1e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin kinase | RBFK | atp_c + ribflv_c ⇋ adp_c + h_c + fmn_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | FMN adenylyltransferase | FMNAT | h_c + atp_c + fmn_c ⇋ fad_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3,4-Dihydroxy-2-butanone-4-phosphate synthase | DB4PS | ru5p_D_c ⇋ db4p_c + for_c + h_c | 0 | 1000 | 0.0044 | 0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase I | GTPCI | h2o_c + gtp_c ⇋ ahdt_c + for_c + h_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase II (25drapp) | GTPCII2 | gtp_c + 3 h2o_c ⇋ ppi_c + 25drapp_c + for_c + 2 h_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-2-methyl-5-phosphomethylpyrimidine synthetase | AMPMS2 | nad_c + air_c + h2o_c ⇋ 4ampm_c + 2 for_c + 3 h_c + nadh_c | 0 | 1000 | 0.0011 | 0.0022 |
| Purine and Pyrimidine Biosynthesis | GAR transformylase-T | GART | gar_c + for_c + atp_c ⇋ fgam_c + adp_c + h_c + pi_c | 0 | 1000 | 0.012 | -0.012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole synthase | PRAIS | fpram_c + atp_c ⇋ air_c + adp_c + pi_c + 2 h_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolecarboxamide formyltransferase | AICART | 10fthf_c + aicar_c ⇋ fprica_c + thf_c | -1000 | 1000 | 2.7 | 2.7 |
| Purine and Pyrimidine Biosynthesis | IMP cyclohydrolase | IMPC | fprica_c ⇋ imp_c + h2o_c | -1000 | 1000 | 2.7 | -2.7 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | geranyltranstransferase | GRTT | ipdp_c + grdp_c ⇋ frdp_c + ppi_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | Undecaprenyl diphosphate synthase | UDCPDPS | 8 ipdp_c + frdp_c ⇋ 8 ppi_c + udcpdp_c | 0 | 1000 | 0.00027 | -0.00027 |
| Cofactor and Prosthetic Group Biosynthesis | Octaprenyl pyrophosphate synthase | OCTDPS | 5 ipdp_c + frdp_c ⇋ octdp_c + 5 ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate lyase | ADSL2r | 25aics_c ⇋ aicar_c + fum_c | -1000 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | adenylsuccinate lyase | ADSL1r | dcamp_c ⇋ amp_c + fum_c | -1000 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | argininosuccinate lyase | ARGSL | argsuc_c ⇋ arg_L_c + fum_c | -1000 | 1000 | 1.5 | 1.5 |
| Oxidative Phosphorylation | succinate dehydrogenase (irreversible) | SUCDi | q8_c + succ_c ⇋ fum_c + q8h2_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | protoporphyrinogen oxidase (anaerobic) | PPPGO3 | pppg9_c + 3 fum_c ⇋ ppp9_c + 3 succ_c | 0 | 1000 | 0.0011 | -0.0033 |
| Citric Acid Cycle | fumarase | FUM | h2o_c + fum_c ⇋ mal_L_c | -1000 | 1000 | 5.1 | -5.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycolysis/Gluconeogenesis | glyceraldehyde-3-phosphate dehydrogenase | GAPD | nadh_c + h_c + 13dpg_c ⇋ g3p_c + pi_c + nad_c | -1000 | 1000 | 71 | 71 |
| Pentose Phosphate Pathway | transaldolase | TALA | f6p_c + e4p_c ⇋ g3p_c + s7p_c | -1000 | 1000 | 13 | 13 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tryptophan synthase (indoleglycerol phosphate) | TRPS1 | ser_L_c + 3ig3p_c ⇋ g3p_c + trp_L_c + h2o_c | 0 | 1000 | 0.28 | 0.28 |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose 5-phosphate synthase | DXPS | pyr_c + g3p_c + h_c ⇋ dxyl5p_c + co2_c | 0 | 1000 | 0.014 | -0.014 |
| Pentose Phosphate Pathway | transketolase1 | TKT1 | g3p_c + s7p_c ⇋ r5p_c + xu5p_D_c | -1000 | 1000 | 13 | -13 |
| Pentose Phosphate Pathway | transketolase2 | TKT2 | g3p_c + f6p_c ⇋ xu5p_D_c + e4p_c | -1000 | 1000 | 15 | -15 |
| Glycolysis/Gluconeogenesis | fructose-bisphosphate aldolase | FBA | g3p_c + dhap_c ⇋ fdp_c | -1000 | 1000 | 28 | -28 |
| Glycolysis/Gluconeogenesis | triose-phosphate isomerase | TPI | g3p_c ⇋ dhap_c | -1000 | 1000 | 29 | -29 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | phosphoglucosamine mutase | PGAMT | gam6p_c ⇋ gam1p_c | -1000 | 1000 | 0.47 | 0.47 |
| Cell Envelope Biosynthesis | glucosamine-1-phosphate N-acetyltransferase | G1PACT | gam1p_c + accoa_c ⇋ coa_c + h_c + acgam1p_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | glutamine-fructose-6-phosphate transaminase | GF6PTA | f6p_c + gln_L_c ⇋ gam6p_c + glu_L_c | 0 | 1000 | 0.47 | 0.47 |
| Cell Envelope Biosynthesis | phosphoglucosamine mutase | PGAMT | gam6p_c ⇋ gam1p_c | -1000 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide synthase | PRAGSr | gly_c + pram_c + atp_c ⇋ adp_c + h_c + gar_c + pi_c | -1000 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | GAR transformylase-T | GART | gar_c + for_c + atp_c ⇋ fgam_c + adp_c + h_c + pi_c | 0 | 1000 | 0.012 | -0.012 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide formyltransferase | GARFT | 10fthf_c + gar_c ⇋ fgam_c + thf_c + h_c | -1000 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | dihydroneopterin aldolase reversible | DHNPA2r | dhnpt_c ⇋ 6hmhpt_c + gcald_c | -1000 | 1000 | 0.0033 | 0.0033 |
| Folate Metabolism | Glycolaldehyde dehydrogenase | GCALDD | nad_c + h2o_c + gcald_c ⇋ nadh_c + glyclt_c + 2 h_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate synthase | ADSS | asp_L_c + gtp_c + imp_c ⇋ 2 h_c + dcamp_c + pi_c + gdp_c | 0 | 1000 | 1.5 | 1.5 |
| Cysteine Metabolism | Sulfate adenyltransferase | SADT2 | so4_c + atp_c + h2o_c + gtp_c ⇋ aps_c + ppi_c + pi_c + gdp_c | 0 | 1000 | 1.2 | 1.2 |
| Nucleotide Salvage Pathway | guanylate kinase (GMP:ATP) | GK1 | gmp_c + atp_c ⇋ adp_c + gdp_c | -1000 | 1000 | 1.2 | 1.2 |
| Nucleotide Salvage Pathway | ribonucleoside-diphosphate reductase (GDP) | RNDR2 | gdp_c + trdrd_c ⇋ dgdp_c + h2o_c + trdox_c | 0 | 1000 | 0.13 | -0.13 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:GDP) | NDPK1 | atp_c + gdp_c ⇋ adp_c + gtp_c | -1000 | 1000 | 3.8 | -3.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glutamate Metabolism | glutamine synthetase | GLNS | atp_c + glu_L_c + nh4_c ⇋ h_c + adp_c + pi_c + gln_L_c | 0 | 1000 | 8.9 | 8.9 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-4-deoxychorismate synthase | ADCS | chor_c + gln_L_c ⇋ 4adcho_c + glu_L_c | 0 | 1000 | 0.0033 | -0.0033 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate synthase | ANS | chor_c + gln_L_c ⇋ pyr_c + h_c + anth_c + glu_L_c | 0 | 1000 | 0.28 | -0.28 |
| Cell Envelope Biosynthesis | glutamine-fructose-6-phosphate transaminase | GF6PTA | f6p_c + gln_L_c ⇋ gam6p_c + glu_L_c | 0 | 1000 | 0.47 | -0.47 |
| Histidine Metabolism | Imidazole-glycerol-3-phosphate synthase | IG3PS | prlp_c + gln_L_c ⇋ eig3p_c + glu_L_c + h_c + aicar_c | 0 | 1000 | 0.47 | -0.47 |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | -0.79 |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | -1.2 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.3 | |
| Purine and Pyrimidine Biosynthesis | glutamine phosphoribosyldiphosphate amidotransferase | GLUPRT | gln_L_c + prpp_c + h2o_c ⇋ ppi_c + glu_L_c + pram_c | 0 | 1000 | 2.2 | -2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | glutamate racemase | GLUR | glu_L_c ⇋ glu_D_c | -1000 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase | UAMAGS | uama_c + atp_c + glu_D_c ⇋ uamag_c + h_c + adp_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glutamate Metabolism | glutamate dehydrogenase (NADP) | GLUDy | h_c + akg_c + nadph_c + nh4_c ⇋ nadp_c + h2o_c + glu_L_c | -1000 | 1000 | 1.6e+02 | 1.6e+02 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | glutamine phosphoribosyldiphosphate amidotransferase | GLUPRT | gln_L_c + prpp_c + h2o_c ⇋ ppi_c + glu_L_c + pram_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | 1.2 |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | 0.79 |
| Histidine Metabolism | Imidazole-glycerol-3-phosphate synthase | IG3PS | prlp_c + gln_L_c ⇋ eig3p_c + glu_L_c + h_c + aicar_c | 0 | 1000 | 0.47 | 0.47 |
| Cell Envelope Biosynthesis | glutamine-fructose-6-phosphate transaminase | GF6PTA | f6p_c + gln_L_c ⇋ gam6p_c + glu_L_c | 0 | 1000 | 0.47 | 0.47 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate synthase | ANS | chor_c + gln_L_c ⇋ pyr_c + h_c + anth_c + glu_L_c | 0 | 1000 | 0.28 | 0.28 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-4-deoxychorismate synthase | ADCS | chor_c + gln_L_c ⇋ 4adcho_c + glu_L_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | O-Phospho-4-hydroxy-L-threonine:2-oxoglutarate aminotransferase | OHPBAT | glu_L_c + ohpb_c ⇋ akg_c + phthr_c | -1000 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate synthase | DHFS | glu_L_c + atp_c + dhpt_c ⇋ h_c + dhf_c + adp_c + pi_c | 0 | 1000 | 0.0033 | -0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Glutamyl-tRNA synthetase | GLUTRS | glu_L_c + atp_c + trnaglu_c ⇋ glutrna_c + amp_c + ppi_c | 0 | 1000 | 0.018 | -0.018 |
| Cell Envelope Biosynthesis | glutamate racemase | GLUR | glu_L_c ⇋ glu_D_c | -1000 | 1000 | 0.14 | -0.14 |
| Histidine Metabolism | histidinol-phosphate transaminase | HSTPT | imacp_c + glu_L_c ⇋ akg_c + hisp_c | 0 | 1000 | 0.47 | -0.47 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tyrosine transaminase | TYRTA | 34hpp_c + glu_L_c ⇋ tyr_L_c + akg_c | -1000 | 1000 | 0.68 | -0.68 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | phenylalanine transaminase | PHETA1 | glu_L_c + phpyr_c ⇋ phe_L_c + akg_c | -1000 | 1000 | 0.91 | -0.91 |
| Arginine and Proline Metabolism | glutamate 5-kinase | GLU5K | glu_L_c + atp_c ⇋ adp_c + glu5p_c | 0 | 1000 | 1.1 | -1.1 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.3 | |
| Valine, Leucine, and Isoleucine Metabolism | isoleucine transaminase | ILETA | glu_L_c + 3mop_c ⇋ ile_L_c + akg_c | -1000 | 1000 | 1.4 | -1.4 |
| Arginine and Proline Metabolism | N-acetylglutamate synthase | ACGS | glu_L_c + accoa_c ⇋ coa_c + h_c + acglu_c | 0 | 1000 | 1.5 | -1.5 |
| Arginine and Proline Metabolism | acetylornithine transaminase | ACOTA | acg5sa_c + glu_L_c ⇋ acorn_c + akg_c | -1000 | 1000 | 1.5 | -1.5 |
| Threonine and Lysine Metabolism | succinyldiaminopimelate transaminase | SDPTA | glu_L_c + sl2a6o_c ⇋ sl26da_c + akg_c | -1000 | 1000 | 1.8 | -1.8 |
| Valine, Leucine, and Isoleucine Metabolism | valine transaminase | VALTA | 3mob_c + glu_L_c ⇋ akg_c + val_L_c | -1000 | 1000 | 2.1 | -2.1 |
| Valine, Leucine, and Isoleucine Metabolism | leucine transaminase (irreversible) | LEUTAi | glu_L_c + 4mop_c ⇋ leu_L_c + akg_c | 0 | 1000 | 2.2 | -2.2 |
| Alanine and Aspartate Metabolism | L-alanine transaminase | ALATA_L | pyr_c + glu_L_c ⇋ ala_L_c + akg_c | -1000 | 1000 | 2.9 | -2.9 |
| Glutamate Metabolism | glutamine synthetase | GLNS | atp_c + glu_L_c + nh4_c ⇋ h_c + adp_c + pi_c + gln_L_c | 0 | 1000 | 8.9 | -8.9 |
| Alanine and Aspartate Metabolism | aspartate transaminase | ASPTA | glu_L_c + oaa_c ⇋ akg_c + asp_L_c | -1000 | 1000 | 1.4e+02 | -1.4e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | glutamyl-tRNA reductase | GLUTRR | glutrna_c + h_c + nadph_c ⇋ glu1sa_c + nadp_c + trnaglu_c | 0 | 1000 | 0.018 | 0.018 |
| Cofactor and Prosthetic Group Biosynthesis | glutamate-1-semialdehyde aminotransferase | G1SAT | glu1sa_c ⇋ 5aop_c | -1000 | 1000 | 0.018 | -0.018 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | glutamate 5-kinase | GLU5K | glu_L_c + atp_c ⇋ adp_c + glu5p_c | 0 | 1000 | 1.1 | 1.1 |
| Arginine and Proline Metabolism | glutamate-5-semialdehyde dehydrogenase | G5SD | glu5p_c + h_c + nadph_c ⇋ glu5sa_c + nadp_c + pi_c | 0 | 1000 | 1.1 | -1.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | glutamate-5-semialdehyde dehydrogenase | G5SD | glu5p_c + h_c + nadph_c ⇋ glu5sa_c + nadp_c + pi_c | 0 | 1000 | 1.1 | 1.1 |
| Arginine and Proline Metabolism | L-glutamate 5-semialdehyde dehydratase (spontaneous) | G5SADs | glu5sa_c ⇋ 1pyr5c_c + h_c + h2o_c | 0 | 1000 | 1.1 | -1.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Glutamyl-tRNA synthetase | GLUTRS | glu_L_c + atp_c + trnaglu_c ⇋ glutrna_c + amp_c + ppi_c | 0 | 1000 | 0.018 | 0.018 |
| Cofactor and Prosthetic Group Biosynthesis | glutamyl-tRNA reductase | GLUTRR | glutrna_c + h_c + nadph_c ⇋ glu1sa_c + nadp_c + trnaglu_c | 0 | 1000 | 0.018 | -0.018 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alternate Carbon Metabolism | Glycolate oxidase | GLYCTO2 | q8_c + glyclt_c ⇋ q8h2_c + glx_c | 0 | 1000 | 0.0033 | 0.0033 |
| Anaplerotic Reactions | malate synthase | MALS | glx_c + accoa_c + h2o_c ⇋ coa_c + h_c + mal_L_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycine and Serine Metabolism | glycine C-acetyltransferase | GLYAT | coa_c + 2aobut_c ⇋ gly_c + accoa_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide synthase | PRAGSr | gly_c + pram_c + atp_c ⇋ adp_c + h_c + gar_c + pi_c | -1000 | 1000 | 2.2 | -2.2 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -3 | |
| Glycine and Serine Metabolism | glycine hydroxymethyltransferase, reversible | GHMT2r | gly_c + mlthf_c + h2o_c ⇋ thf_c + ser_L_c | -1000 | 1000 | 57 | -57 |
| Folate Metabolism | Glycine Cleavage System | GLYCL | gly_c + nad_c + thf_c ⇋ mlthf_c + nadh_c + co2_c + nh4_c | 0 | 1000 | 63 | -63 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alternate Carbon Metabolism | glycerol-3-phosphate dehydrogenase (NADP) | G3PD2 | h_c + nadph_c + dhap_c ⇋ glyc3p_c + nadp_c | -1000 | 1000 | 0.69 | 0.69 |
| Glycerophospholipid Metabolism | glycerol-3-phosphate acyltransferase (C16:0) | G3PAT160 | palmACP_c + glyc3p_c ⇋ ACP_c + 1hdecg3p_c | 0 | 1000 | 0.31 | -0.31 |
| Glycerophospholipid Metabolism | glycerol-3-phosphate acyltransferase (C16:1) | G3PAT161 | hdeACP_c + glyc3p_c ⇋ ACP_c + 1hdec9eg3p_c | 0 | 1000 | 0.37 | -0.37 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Folate Metabolism | Glycolaldehyde dehydrogenase | GCALDD | nad_c + h2o_c + gcald_c ⇋ nadh_c + glyclt_c + 2 h_c | 0 | 1000 | 0.0033 | 0.0033 |
| Alternate Carbon Metabolism | Glycolate oxidase | GLYCTO2 | q8_c + glyclt_c ⇋ q8h2_c + glx_c | 0 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Enoylglutaryl-[ACP] methyl ester reductase | EGMEACPR | egmeACP_c + h_c + nadph_c ⇋ nadp_c + gmeACP_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester synthase | OPMEACPS | gmeACP_c + h_c + malACP_c ⇋ ACP_c + opmeACP_c + co2_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | 1.2 |
| Nucleotide Salvage Pathway | guanylate kinase (GMP:ATP) | GK1 | gmp_c + atp_c ⇋ adp_c + gdp_c | -1000 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | dimethylallyltranstransferase | DMATT | dmpp_c + ipdp_c ⇋ grdp_c + ppi_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | geranyltranstransferase | GRTT | ipdp_c + grdp_c ⇋ frdp_c + ppi_c | 0 | 1000 | 0.0014 | -0.0014 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:GDP) | NDPK1 | atp_c + gdp_c ⇋ adp_c + gtp_c | -1000 | 1000 | 3.8 | 3.8 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase | BMOGDS2 | bmoco1gdp_c + h_c + gtp_c ⇋ ppi_c + bmocogdp_c | 0 | 1000 | 0.0006 | -0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase (single GDP) | BMOGDS1 | bmoco_c + h_c + gtp_c ⇋ bmoco1gdp_c + ppi_c | 0 | 1000 | 0.0006 | -0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | cyclic pyranopterin monophosphate synthase | CPMPS | gtp_c + h2o_c ⇋ ppi_c + cpmp_c | 0 | 1000 | 0.0012 | -0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase II (25drapp) | GTPCII2 | gtp_c + 3 h2o_c ⇋ ppi_c + 25drapp_c + for_c + 2 h_c | 0 | 1000 | 0.0022 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase I | GTPCI | h2o_c + gtp_c ⇋ ahdt_c + for_c + h_c | 0 | 1000 | 0.0033 | -0.0033 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.1 | |
| Cysteine Metabolism | Sulfate adenyltransferase | SADT2 | so4_c + atp_c + h2o_c + gtp_c ⇋ aps_c + ppi_c + pi_c + gdp_c | 0 | 1000 | 1.2 | -1.2 |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate synthase | ADSS | asp_L_c + gtp_c + imp_c ⇋ 2 h_c + dcamp_c + pi_c + gdp_c | 0 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | ATP synthase (four protons for one ATP) (periplasm) | ATPS4rpp | adp_c + pi_c + 4 h_p ⇋ 3 h_c + atp_c + h2o_c | -1000 | 1000 | 9.8e+02 | 2.9e+03 |
| Oxidative Phosphorylation | NAD(P) transhydrogenase (periplasm) | THD2pp | nadh_c + nadp_c + 2 h_p ⇋ nad_c + nadph_c + 2 h_c | 0 | 1000 | 5.3e+02 | 1.1e+03 |
| Glycolysis/Gluconeogenesis | phosphoenolpyruvate synthase | PPS | pyr_c + h2o_c + atp_c ⇋ amp_c + pep_c + 2 h_c + pi_c | 0 | 1000 | 1.4e+02 | 2.9e+02 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | 2.7e+02 | |
| Anaplerotic Reactions | phosphoenolpyruvate carboxylase | PPC | h2o_c + co2_c + pep_c ⇋ h_c + pi_c + oaa_c | 0 | 1000 | 1.4e+02 | 1.4e+02 |
| Threonine and Lysine Metabolism | homoserine kinase | HSK | hom_L_c + atp_c ⇋ phom_c + adp_c + h_c | 0 | 1000 | 1.3e+02 | 1.3e+02 |
| Glycine and Serine Metabolism | L-threonine dehydrogenase | THRD | nad_c + thr_L_c ⇋ nadh_c + h_c + 2aobut_c | 0 | 1000 | 1.3e+02 | 1.3e+02 |
| PRK+RuBisCO | PRK+RBC | co2_c + atp_c + ru5p_D_c + h2o_c ⇋ 3 h_c + adp_c + 2 3pg_c | 0 | 1000 | 36 | 1.1e+02 | |
| Unassigned | flavodoxin reductase (NADPH) | FLDR2 | 2 flxso_c + nadph_c ⇋ h_c + nadp_c + 2 flxr_c | 0 | 1000 | 1e+02 | 1e+02 |
| Glutamate Metabolism | glutamine synthetase | GLNS | atp_c + glu_L_c + nh4_c ⇋ h_c + adp_c + pi_c + gln_L_c | 0 | 1000 | 8.9 | 8.9 |
| Unassigned | Carbamate kinase | CBMKr | nh4_c + co2_c + atp_c ⇋ cbp_c + 2 h_c + adp_c | -1000 | 1000 | 3.1 | 6.2 |
| Citric Acid Cycle | citrate synthase | CS | h2o_c + oaa_c + accoa_c ⇋ coa_c + cit_c + h_c | 0 | 1000 | 5.3 | 5.3 |
| Citric Acid Cycle | malate dehydrogenase | MDH | nad_c + mal_L_c ⇋ nadh_c + h_c + oaa_c | -1000 | 1000 | 5.1 | 5.1 |
| Folate Metabolism | methenyltetrahydrofolate cyclohydrolase | MTHFC | methf_c + h2o_c ⇋ h_c + 10fthf_c | -1000 | 1000 | 4.9 | 4.9 |
| Inorganic Ion Transport and Metabolism | phosphate reversible transport via symport (periplasm) | PIt2rpp | pi_p + h_p ⇋ h_c + pi_c | -1000 | 1000 | 4.8 | 4.8 |
| Histidine Metabolism | phosphoribosylpyrophosphate synthetase | PRPPS | atp_c + r5p_c ⇋ amp_c + h_c + prpp_c | -1000 | 1000 | 4.6 | 4.6 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole synthase | PRAIS | fpram_c + atp_c ⇋ air_c + adp_c + pi_c + 2 h_c | 0 | 1000 | 2.2 | 4.4 |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate synthase | ADSS | asp_L_c + gtp_c + imp_c ⇋ 2 h_c + dcamp_c + pi_c + gdp_c | 0 | 1000 | 1.5 | 2.9 |
| Unassigned | HCO3 equilibration reaction | HCO3E | co2_c + h2o_c ⇋ h_c + hco3_c | -1000 | 1000 | 2.6 | 2.6 |
| Cysteine Metabolism | phosphoadenylyl-sulfate reductase (thioredoxin) | PAPSR | paps_c + trdrd_c ⇋ 2 h_c + so3_c + pap_c + trdox_c | 0 | 1000 | 1.2 | 2.4 |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | 2.4 |
| Valine, Leucine, and Isoleucine Metabolism | 3-isopropylmalate dehydrogenase | IPMD | nad_c + 3c2hmp_c ⇋ nadh_c + h_c + 3c4mop_c | 0 | 1000 | 2.2 | 2.2 |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate synthase | IPPS | 3mob_c + h2o_c + accoa_c ⇋ coa_c + h_c + 3c3hmp_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide synthase | PRAGSr | gly_c + pram_c + atp_c ⇋ adp_c + h_c + gar_c + pi_c | -1000 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase | AIRC2 | hco3_c + air_c + atp_c ⇋ 5caiz_c + adp_c + h_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolesuccinocarboxamide synthase | PRASCSi | asp_L_c + 5aizc_c + atp_c ⇋ adp_c + 25aics_c + h_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide formyltransferase | GARFT | 10fthf_c + gar_c ⇋ fgam_c + thf_c + h_c | -1000 | 1000 | 2.2 | 2.2 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate kinase | SHKK | skm_c + atp_c ⇋ skm5p_c + adp_c + h_c | 0 | 1000 | 1.9 | 1.9 |
| Threonine and Lysine Metabolism | dihydrodipicolinate synthase | DHDPS | pyr_c + aspsa_c ⇋ h_c + 2 h2o_c + 23dhdp_c | 0 | 1000 | 1.8 | 1.8 |
| Purine and Pyrimidine Biosynthesis | aspartate carbamoyltransferase | ASPCT | cbp_c + asp_L_c ⇋ h_c + pi_c + cbasp_c | 0 | 1000 | 1.6 | 1.6 |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | 1.6 |
| Arginine and Proline Metabolism | ornithine carbamoyltransferase | OCBT | cbp_c + orn_c ⇋ citr_L_c + h_c + pi_c | -1000 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | argininosuccinate synthase | ARGSS | asp_L_c + citr_L_c + atp_c ⇋ amp_c + argsuc_c + h_c + ppi_c | 0 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | N-acetylglutamate synthase | ACGS | glu_L_c + accoa_c ⇋ coa_c + h_c + acglu_c | 0 | 1000 | 1.5 | 1.5 |
| Histidine Metabolism | histidinol dehydrogenase | HISTD | histd_c + 2 nad_c + h2o_c ⇋ 2 nadh_c + his_L_c + 3 h_c | 0 | 1000 | 0.47 | 1.4 |
| Inorganic Ion Transport and Metabolism | sulfate transport in via proton symport (periplasm to cytoplasm) | SO4t2pp | so4_p + h_p ⇋ h_c + so4_c | 0 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | cysteine synthase | CYSS | acser_c + h2s_c ⇋ ac_c + cys_L_c + h_c | 0 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | adenylyl-sulfate kinase | ADSK | atp_c + aps_c ⇋ paps_c + adp_c + h_c | 0 | 1000 | 1.2 | 1.2 |
| Purine and Pyrimidine Biosynthesis | IMP dehydrogenase | IMPD | nad_c + h2o_c + imp_c ⇋ nadh_c + h_c + xmp_c | 0 | 1000 | 1.2 | 1.2 |
| Alanine and Aspartate Metabolism | asparagine synthetase | ASNS2 | nh4_c + asp_L_c + atp_c ⇋ ppi_c + h_c + asn_L_c + amp_c | 0 | 1000 | 1.2 | 1.2 |
| Arginine and Proline Metabolism | L-glutamate 5-semialdehyde dehydratase (spontaneous) | G5SADs | glu5sa_c ⇋ 1pyr5c_c + h_c + h2o_c | 0 | 1000 | 1.1 | 1.1 |
| Inorganic Ion Transport and Metabolism | potassium transport in via proton symport (periplasm) | Kt2pp | k_p + h_p ⇋ h_c + k_c | 0 | 1000 | 0.96 | 0.96 |
| Methionine Metabolism | methionine synthase | METS | hcys_L_c + 5mthf_c ⇋ h_c + met_L_c + thf_c | 0 | 1000 | 0.76 | 0.76 |
| Methionine Metabolism | O-succinylhomoserine lyase (L-cysteine) | SHSL1 | cys_L_c + suchms_c ⇋ cyst_L_c + h_c + succ_c | 0 | 1000 | 0.76 | 0.76 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecenoate) | FACOAE161 | hdcoa_c + h2o_c ⇋ coa_c + hdcea_c + h_c | 0 | 1000 | 0.74 | 0.74 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecanoate) | FACOAE160 | pmtcoa_c + h2o_c ⇋ coa_c + h_c + hdca_c | 0 | 1000 | 0.63 | 0.63 |
| Histidine Metabolism | Imidazole-glycerol-3-phosphate synthase | IG3PS | prlp_c + gln_L_c ⇋ eig3p_c + glu_L_c + h_c + aicar_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | phosphoribosyl-ATP pyrophosphatase | PRATPP | prbatp_c + h2o_c ⇋ ppi_c + prbamp_c + h_c | 0 | 1000 | 0.47 | 0.47 |
| Cell Envelope Biosynthesis | glucosamine-1-phosphate N-acetyltransferase | G1PACT | gam1p_c + accoa_c ⇋ coa_c + h_c + acgam1p_c | 0 | 1000 | 0.47 | 0.47 |
| Membrane Lipid Metabolism | acetyl-CoA carboxylase | ACCOAC | hco3_c + atp_c + accoa_c ⇋ adp_c + h_c + malcoa_c + pi_c | 0 | 1000 | 0.38 | 0.38 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (dodecanoate) | FACOAE120 | ddcacoa_c + h2o_c ⇋ coa_c + ddca_c + h_c | 0 | 1000 | 0.38 | 0.38 |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:1) | PSSA161 | cdpdhdec9eg_c + ser_L_c ⇋ cmp_c + ps161_c + h_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:0) | PSSA160 | cdpdhdecg_c + ser_L_c ⇋ ps160_c + cmp_c + h_c | 0 | 1000 | 0.31 | 0.31 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate synthase | ANS | chor_c + gln_L_c ⇋ pyr_c + h_c + anth_c + glu_L_c | 0 | 1000 | 0.28 | 0.28 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:0, periplasm) | PE160abcpp | h2o_c + pe160_c + atp_c ⇋ pe160_p + adp_c + h_c + pi_c | 0 | 1000 | 0.23 | 0.23 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-(3-hydroxymyristoyl)glucosamine acyltransferase | U23GAAT | 3hmrsACP_c + u3hga_c ⇋ ACP_c + h_c + u23ga_c | 0 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-sugar hydrolase | USHD | u23ga_c + h2o_c ⇋ ump_c + 2 h_c + lipidX_c | 0 | 1000 | 0.096 | 0.19 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase | UAMAGS | uama_c + atp_c + glu_D_c ⇋ uamag_c + h_c + adp_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | D-alanine-D-alanine ligase (reversible) | ALAALAr | atp_c + 2 ala_D_c ⇋ adp_c + h_c + pi_c + alaala_c | -1000 | 1000 | 0.14 | 0.14 |
| Murein Biosynthesis | murein polymerizing transglycosylase | MPTG | 2 uaagmda_c ⇋ 2 h_c + murein5p5p_p + 2 udcpdp_c | 0 | 1000 | 0.068 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanine synthetase | UAMAS | uamr_c + ala_L_c + atp_c ⇋ uama_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelate synthetase | UAAGDS | uamag_c + 26dap_M_c + atp_c ⇋ ugmd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | undecaprenyl-diphosphatase | UDCPDP | h2o_c + udcpdp_c ⇋ udcpp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine synthetase | UGMDDS | ugmd_c + alaala_c + atp_c ⇋ adp_c + h_c + pi_c + ugmda_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferase | UAGPT3 | uacgam_c + uagmda_c ⇋ udp_c + h_c + uaagmda_c | 0 | 1000 | 0.14 | 0.14 |
| Nucleotide Salvage Pathway | dUTP diphosphatase | DUTPDP | h2o_c + dutp_c ⇋ ppi_c + dump_c + h_c | 0 | 1000 | 0.13 | 0.13 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:1, periplasm) | PE161abcpp | h2o_c + pe161_c + atp_c ⇋ adp_c + h_c + pi_c + pe161_p | 0 | 1000 | 0.1 | 0.1 |
| Transport, Inner Membrane | KDO(2)-lipid IV A transport via ABC system (periplasm) | K2L4Aabcpp | kdo2lipid4_c + atp_c + h2o_c ⇋ h_c + adp_c + kdo2lipid4_p + pi_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT2 | ckdo_c + kdolipid4_c ⇋ h_c + cmp_c + kdo2lipid4_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | Tetraacyldisaccharide 4'kinase | TDSK | lipidAds_c + atp_c ⇋ adp_c + h_c + lipidA_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT | ckdo_c + lipidA_c ⇋ kdolipid4_c + cmp_c + h_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | Lipid A disaccaride synthase | LPADSS | u23ga_c + lipidX_c ⇋ udp_c + h_c + lipidAds_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | KDO(2)-lipid IV A transport via ABC system (periplasm to extracellular) | K2L4Aabctex | kdo2lipid4_p + h2o_c + atp_c ⇋ kdo2lipid4_e + adp_c + h_c + pi_c | 0 | 1000 | 0.096 | 0.096 |
| Transport, Inner Membrane | D-alanine transport in via proton symport (periplasm) | DALAt2pp | ala_D_p + h_p ⇋ ala_D_c + h_c | 0 | 1000 | 0.068 | 0.068 |
| Purine and Pyrimidine Biosynthesis | GAR transformylase-T | GART | gar_c + for_c + atp_c ⇋ fgam_c + adp_c + h_c + pi_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase | CDPMEK | 4c2me_c + atp_c ⇋ 2p4c2me_c + h_c + adp_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | NAD synthase (nh3) | NADS1 | nh4_c + dnad_c + atp_c ⇋ h_c + nad_c + ppi_c + amp_c | 0 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | L-aspartate oxidase | ASPO6 | o2_c + asp_L_c ⇋ h_c + iasp_c + h2o2_c | 0 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | porphobilinogen synthase | PPBNGS | 2 5aop_c ⇋ 2 h2o_c + ppbng_c + h_c | 0 | 1000 | 0.0088 | 0.0088 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis | I2FE2SS | 2 fe2_c + iscu_c + fadh2_c + 2 iscssh_c ⇋ 6 h_c + iscu_2fe2s_c + fad_c + 2 iscs_c | 0 | 1000 | 0.0014 | 0.0085 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis II | I2FE2SS2 | 2 fe2_c + 2 iscssh_c + iscu_2fe2s_c + fadh2_c ⇋ fad_c + 2 iscs_c + 6 h_c + iscu_2fe2s2_c | 0 | 1000 | 0.0013 | 0.0077 |
| Folate Metabolism | Glycolaldehyde dehydrogenase | GCALDD | nad_c + h2o_c + gcald_c ⇋ nadh_c + glyclt_c + 2 h_c | 0 | 1000 | 0.0033 | 0.0066 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase | MPTS | 2 moadcosh_c + cu2_c + cpmp_c ⇋ mpt_c + 5 h_c + 2 moadcoo_c | 0 | 1000 | 0.0012 | 0.006 |
| Cofactor and Prosthetic Group Biosynthesis | 3,4-Dihydroxy-2-butanone-4-phosphate synthase | DB4PS | ru5p_D_c ⇋ db4p_c + for_c + h_c | 0 | 1000 | 0.0044 | 0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase II (25drapp) | GTPCII2 | gtp_c + 3 h2o_c ⇋ ppi_c + 25drapp_c + for_c + 2 h_c | 0 | 1000 | 0.0022 | 0.0044 |
| Nucleotide Salvage Pathway | adenosine kinase | ADNK1 | adn_c + atp_c ⇋ adp_c + h_c + amp_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | 4-aminobenzoate synthase | ADCL | 4adcho_c ⇋ h_c + 4abz_c + pyr_c | 0 | 1000 | 0.0033 | 0.0033 |
| Anaplerotic Reactions | malate synthase | MALS | glx_c + accoa_c + h2o_c ⇋ coa_c + h_c + mal_L_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin triphosphate pyrophosphatase | DNTPPA | ahdt_c + h2o_c ⇋ ppi_c + dhpmp_c + h_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase I | GTPCI | h2o_c + gtp_c ⇋ ahdt_c + for_c + h_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | 6-hydroxymethyl-dihydropterin pyrophosphokinase | HPPK2 | 6hmhpt_c + atp_c ⇋ 6hmhptpp_c + h_c + amp_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate synthase | DHFS | glu_L_c + atp_c + dhpt_c ⇋ h_c + dhf_c + adp_c + pi_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin ferrochelatase | SHCHF | scl_c + fe2_c ⇋ sheme_c + 3 h_c | 0 | 1000 | 0.0011 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-2-methyl-5-phosphomethylpyrimidine synthetase | AMPMS2 | nad_c + air_c + h2o_c ⇋ 4ampm_c + 2 for_c + 3 h_c + nadh_c | 0 | 1000 | 0.0011 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate kinase | PNTK | pnto_R_c + atp_c ⇋ h_c + 4ppan_c + adp_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | dephospho-CoA kinase | DPCOAK | dpcoa_c + atp_c ⇋ coa_c + adp_c + h_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate synthase | PANTS | pant_R_c + atp_c + ala_B_c ⇋ pnto_R_c + h_c + amp_c + ppi_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenate-cysteine ligase | PPNCL2 | cys_L_c + 4ppan_c + ctp_c ⇋ 4ppcys_c + ppi_c + cmp_c + h_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | NAD kinase | NADK | nad_c + atp_c ⇋ nadp_c + adp_c + h_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | Erythrose 4-phosphate dehydrogenase | E4PD | nad_c + h2o_c + e4p_c ⇋ nadh_c + 4per_c + 2 h_c | -1000 | 1000 | 0.0011 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | Ferrochelatase | FCLT | ppp9_c + fe2_c ⇋ 2 h_c + pheme_c | 0 | 1000 | 0.0011 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin kinase | RBFK | atp_c + ribflv_c ⇋ adp_c + h_c + fmn_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen methyltransferase | UPP3MT | uppg3_c + 2 amet_c ⇋ dscl_c + 2 ahcys_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Erythronate 4-phosphate (4per) dehydrogenase | PERD | nad_c + 4per_c ⇋ nadh_c + h_c + ohpb_c | -1000 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin dehydrogenase (NAD) | SHCHD2 | dscl_c + nad_c ⇋ nadh_c + scl_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Inorganic Ion Transport and Metabolism | molybdate transport via ABC system (periplasm) | MOBDabcpp | mobd_p + atp_c + h2o_c ⇋ mobd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.00064 | 0.00064 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] regeneration | I2FE2SR | 2fe1s_c + iscssh_c + iscu_c ⇋ iscs_c + iscu_2fe2s_c + 4 h_c | 0 | 1000 | 9.9e-06 | 3.9e-05 |
| Cofactor and Prosthetic Group Biosynthesis | dethiobiotin synthase | DBTS | dann_c + co2_c + atp_c ⇋ adp_c + 3 h_c + pi_c + dtbt_c | 0 | 1000 | 9.9e-06 | 3e-05 |
| Cofactor and Prosthetic Group Biosynthesis | Biotin synthase | BTS5 | 2fe2s_c + amet_c + dtbt_c ⇋ 2fe1s_c + met_L_c + h_c + btn_c + dad_5_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester synthase | OGMEACPS | h_c + malACP_c + malcoame_c ⇋ ogmeACP_c + co2_c + coa_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Enoylpimeloyl-[ACP] methyl ester reductase | EPMEACPR | h_c + epmeACP_c + nadph_c ⇋ nadp_c + pmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester reductase | OPMEACPR | h_c + nadph_c + opmeACP_c ⇋ nadp_c + hpmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester reductase | OGMEACPR | ogmeACP_c + h_c + nadph_c ⇋ hgmeACP_c + nadp_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester synthase | OPMEACPS | gmeACP_c + h_c + malACP_c ⇋ ACP_c + opmeACP_c + co2_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Enoylglutaryl-[ACP] methyl ester reductase | EGMEACPR | egmeACP_c + h_c + nadph_c ⇋ nadp_c + gmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Transfer | I2FE2ST | iscu_2fe2s_c + 4 h_c ⇋ iscu_c + 2fe2s_c | 0 | 1000 | 0.00014 | -0.00055 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase | BMOGDS2 | bmoco1gdp_c + h_c + gtp_c ⇋ ppi_c + bmocogdp_c | 0 | 1000 | 0.0006 | -0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase (single GDP) | BMOGDS1 | bmoco_c + h_c + gtp_c ⇋ bmoco1gdp_c + ppi_c | 0 | 1000 | 0.0006 | -0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | Octaprenyl-hydroxybenzoate decarboxylase | OPHBDC | h_c + 3ophb_c ⇋ 2oph_c + co2_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate diphosphorylase | TMPPP | 4mpetz_c + 2mahmp_c + h_c ⇋ thmmp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | FMN adenylyltransferase | FMNAT | h_c + atp_c + fmn_c ⇋ fad_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin adenylyltransferase | MPTAT | mpt_c + h_c + atp_c ⇋ mptamp_c + ppi_c | 0 | 1000 | 0.0012 | -0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | molybdenum cofactor synthase | MOCOS | mptamp_c + mobd_c + 2 h_c ⇋ h2o_c + amp_c + moco_c + cu2_c | 0 | 1000 | 0.0006 | -0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (dmpp) | DMPPS | h_c + h2mb4p_c + nadh_c ⇋ dmpp_c + nad_c + h2o_c | 0 | 1000 | 0.0014 | -0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | coproporphyrinogen oxidase (O2 required) | CPPPGO | o2_c + 2 h_c + cpppg3_c ⇋ pppg9_c + 2 co2_c + 2 h2o_c | 0 | 1000 | 0.0011 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | diaminohydroxyphosphoribosylaminopryrimidine deaminase (25drapp) | DHPPDA2 | h_c + 25drapp_c + h2o_c ⇋ 5apru_c + nh4_c | 0 | 1000 | 0.0022 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | 5-amino-6-(5-phosphoribosylamino)uracil reductase | APRAUR | nadph_c + h_c + 5apru_c ⇋ nadp_c + 5aprbu_c | 0 | 1000 | 0.0022 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase sulfurylase | MPTSS | moadcoo_c + h_c + atp_c ⇋ ppi_c + moadamp_c | 0 | 1000 | 0.0024 | -0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Reduction | I4FE4SR | iscu_2fe2s2_c + 2 h_c + fadh2_c ⇋ fad_c + iscu_4fe4s_c | 0 | 1000 | 0.0013 | -0.0026 |
| Cofactor and Prosthetic Group Biosynthesis | 2-dehydropantoate 2-reductase | DPR | 2dhp_c + h_c + nadph_c ⇋ pant_R_c + nadp_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | aspartate 1-decarboxylase | ASP1DC | asp_L_c + h_c ⇋ ala_B_c + co2_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantetheine-phosphate adenylyltransferase | PTPATi | h_c + atp_c + pan4p_c ⇋ ppi_c + dpcoa_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenoylcysteine decarboxylase | PPCDC | 4ppcys_c + h_c ⇋ co2_c + pan4p_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen decarboxylase (uroporphyrinogen III) | UPPDC1 | uppg3_c + 4 h_c ⇋ cpppg3_c + 4 co2_c | 0 | 1000 | 0.0011 | -0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Transfer | I4FE4ST | iscu_4fe4s_c + 4 h_c ⇋ iscu_c + 4fe4s_c | 0 | 1000 | 0.0013 | -0.0051 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (ipdp) | IPDPS | nadh_c + h_c + h2mb4p_c ⇋ ipdp_c + nad_c + h2o_c | 0 | 1000 | 0.01 | -0.01 |
| Nucleotide Salvage Pathway | nicotinate-nucleotide adenylyltransferase | NNATr | nicrnt_c + h_c + atp_c ⇋ ppi_c + dnad_c | -1000 | 1000 | 0.011 | -0.011 |
| Cofactor and Prosthetic Group Biosynthesis | 2C-methyl-D-erythritol 2,4 cyclodiphosphate dehydratase | MECDPDH5 | 2mecdp_c + h_c + 2 flxr_c ⇋ h2mb4p_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.012 | -0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose reductoisomerase | DXPRIi | dxyl5p_c + h_c + nadph_c ⇋ 2me4p_c + nadp_c | 0 | 1000 | 0.012 | -0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase | MEPCT | 2me4p_c + h_c + ctp_c ⇋ 4c2me_c + ppi_c | 0 | 1000 | 0.012 | -0.012 |
| Inorganic Ion Transport and Metabolism | chloride transport out via proton antiport (2:1) (periplasm) | CLt3_2pp | h_c + 2 cl_p ⇋ h_p + 2 cl_c | 0 | 1000 | 0.013 | -0.013 |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose 5-phosphate synthase | DXPS | pyr_c + g3p_c + h_c ⇋ dxyl5p_c + co2_c | 0 | 1000 | 0.014 | -0.014 |
| Cofactor and Prosthetic Group Biosynthesis | glutamyl-tRNA reductase | GLUTRR | glutrna_c + h_c + nadph_c ⇋ glu1sa_c + nadp_c + trnaglu_c | 0 | 1000 | 0.018 | -0.018 |
| Cofactor and Prosthetic Group Biosynthesis | nicotinate-nucleotide diphosphorylase (carboxylating) | NNDPR | quln_c + 2 h_c + prpp_c ⇋ nicrnt_c + ppi_c + co2_c | 0 | 1000 | 0.011 | -0.022 |
| Transport, Inner Membrane | L-proline reversible transport via proton symport (periplasm) | PROt2rpp | h_c + pro_L_c ⇋ pro_L_p + h_p | -1000 | 1000 | 0.026 | -0.026 |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster damage (peroxide, spontaneous) | FESD1s | 2 4fe4s_c + 2 h_c + h2o2_c ⇋ 2 h2o_c + 2 3fe4s_c + 2 fe3_c | 0 | 1000 | 0.019 | -0.038 |
| Inorganic Ion Transport and Metabolism | magnesium (Mg+2) transport in/out via proton antiport (periplasm) | MG2t3_2pp | 2 h_c + mg2_p ⇋ mg2_c + 2 h_p | -1000 | 1000 | 0.043 | -0.086 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate reductase | DHFR | h_c + dhf_c + nadph_c ⇋ nadp_c + thf_c | -1000 | 1000 | 0.13 | -0.13 |
| Cell Envelope Biosynthesis | UDP-N-acetylenolpyruvoylglucosamine reductase | UAPGR | nadph_c + h_c + uaccg_c ⇋ nadp_c + uamr_c | 0 | 1000 | 0.14 | -0.14 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (UTP) (flavodoxin) | RNTR4c2 | 2 h_c + utp_c + 2 flxr_c ⇋ h2o_c + 2 flxso_c + dutp_c | 0 | 1000 | 0.13 | -0.26 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (ATP) (flavodoxin) | RNTR1c2 | atp_c + 2 h_c + 2 flxr_c ⇋ datp_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.13 | -0.26 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (CTP) (flavodoxin) | RNTR3c2 | 2 h_c + ctp_c + 2 flxr_c ⇋ dctp_c + h2o_c + 2 flxso_c | 0 | 1000 | 0.13 | -0.27 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | indole-3-glycerol-phosphate synthase | IGPS | 2cpr5p_c + h_c ⇋ co2_c + 3ig3p_c + h2o_c | 0 | 1000 | 0.28 | -0.28 |
| Glycerophospholipid Metabolism | Phosphatidylserine decarboxylase (n-C16:0) | PSD160 | h_c + ps160_c ⇋ pe160_c + co2_c | 0 | 1000 | 0.31 | -0.31 |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:0) | DASYN160 | pa160_c + ctp_c + h_c ⇋ ppi_c + cdpdhdecg_c | 0 | 1000 | 0.31 | -0.31 |
| Glycerophospholipid Metabolism | Phosphatidylserine decarboxylase (n-C16:1) | PSD161 | ps161_c + h_c ⇋ co2_c + pe161_c | 0 | 1000 | 0.37 | -0.37 |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:1) | DASYN161 | pa161_c + ctp_c + h_c ⇋ ppi_c + cdpdhdec9eg_c | 0 | 1000 | 0.37 | -0.37 |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] reductase (n-C14:0) | 3OAR140 | 3omrsACP_c + h_c + nadph_c ⇋ nadp_c + 3hmrsACP_c | -1000 | 1000 | 0.38 | -0.38 |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] synthase (n-C14:0) | 3OAS140 | ddcaACP_c + h_c + malACP_c ⇋ ACP_c + 3omrsACP_c + co2_c | 0 | 1000 | 0.38 | -0.38 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine diphosphorylase | UAGDP | utp_c + h_c + acgam1p_c ⇋ ppi_c + uacgam_c | 0 | 1000 | 0.47 | -0.47 |
| Alternate Carbon Metabolism | glycerol-3-phosphate dehydrogenase (NADP) | G3PD2 | h_c + nadph_c + dhap_c ⇋ glyc3p_c + nadp_c | -1000 | 1000 | 0.69 | -0.69 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydratase | PPNDH | h_c + pphn_c ⇋ phpyr_c + co2_c + h2o_c | 0 | 1000 | 0.91 | -0.91 |
| Arginine and Proline Metabolism | glutamate-5-semialdehyde dehydrogenase | G5SD | glu5p_c + h_c + nadph_c ⇋ glu5sa_c + nadp_c + pi_c | 0 | 1000 | 1.1 | -1.1 |
| Oxidative Phosphorylation | thioredoxin reductase (NADPH) | TRDR | h_c + trdox_c + nadph_c ⇋ nadp_c + trdrd_c | 0 | 1000 | 1.4 | -1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxotetradecanoyl-CoA) | HACD6 | 3otdcoa_c + nadh_c + h_c ⇋ nad_c + 3htdcoa_c | -1000 | 1000 | 1.4 | -1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexadecanoyl-CoA) | HACD7 | nadh_c + 3ohdcoa_c + h_c ⇋ 3hhdcoa_c + nad_c | -1000 | 1000 | 1.4 | -1.4 |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2-Acetolactate) | KARA2 | 2ahbut_c + h_c + nadph_c ⇋ 23dhmp_c + nadp_c | -1000 | 1000 | 1.4 | -1.4 |
| Valine, Leucine, and Isoleucine Metabolism | 2-aceto-2-hydroxybutanoate synthase | ACHBS | pyr_c + 2obut_c + h_c ⇋ 2ahbut_c + co2_c | 0 | 1000 | 1.4 | -1.4 |
| Arginine and Proline Metabolism | N-acetyl-g-glutamyl-phosphate reductase | AGPR | acg5p_c + h_c + nadph_c ⇋ nadp_c + acg5sa_c + pi_c | -1000 | 1000 | 1.5 | -1.5 |
| Folate Metabolism | 5,10-methylenetetrahydrofolate reductase (NADH) | MTHFR2 | nadh_c + mlthf_c + 2 h_c ⇋ nad_c + 5mthf_c | 0 | 1000 | 0.76 | -1.5 |
| Purine and Pyrimidine Biosynthesis | orotidine-5'-phosphate decarboxylase | OMPDC | h_c + orot5p_c ⇋ co2_c + ump_c | 0 | 1000 | 1.6 | -1.6 |
| Purine and Pyrimidine Biosynthesis | dihydroorotase | DHORTS | h_c + cbasp_c ⇋ dhor_S_c + h2o_c | -1000 | 1000 | 1.6 | -1.6 |
| Threonine and Lysine Metabolism | diaminopimelate decarboxylase | DAPDC | h_c + 26dap_M_c ⇋ co2_c + lys_L_c | 0 | 1000 | 1.7 | -1.7 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxodecanoyl-CoA) | HACD4 | nadh_c + h_c + 3odcoa_c ⇋ 3hdcoa_c + nad_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexanoyl-CoA) | HACD2 | nadh_c + 3ohcoa_c + h_c ⇋ nad_c + 3hhcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (acetoacetyl-CoA) | HACD1 | nadh_c + aacoa_c + h_c ⇋ 3hbcoa_c + nad_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxooctanoyl-CoA) | HACD3 | nadh_c + h_c + 3oocoa_c ⇋ nad_c + 3hocoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxododecanoyl-CoA) | HACD5 | 3oddcoa_c + h_c + nadh_c ⇋ nad_c + 3hddcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Threonine and Lysine Metabolism | dihydrodipicolinate reductase (NADPH) | DHDPRy | 23dhdp_c + h_c + nadph_c ⇋ nadp_c + thdp_c | 0 | 1000 | 1.8 | -1.8 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate dehydrogenase | SHK3Dr | h_c + 3dhsk_c + nadph_c ⇋ skm_c + nadp_c | -1000 | 1000 | 1.9 | -1.9 |
| Arginine and Proline Metabolism | pyrroline-5-carboxylate reductase | P5CR | 1pyr5c_c + 2 h_c + nadph_c ⇋ nadp_c + pro_L_c | 0 | 1000 | 1.1 | -2.2 |
| Valine, Leucine, and Isoleucine Metabolism | 2-Oxo-4-methyl-3-carboxypentanoate decarboxylation | OMCDC | 3c4mop_c + h_c ⇋ co2_c + 4mop_c | 0 | 1000 | 2.2 | -2.2 |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2,3-dihydroxy-3-methylbutanoate) | KARA1 | h_c + alac_S_c + nadph_c ⇋ 23dhmb_c + nadp_c | -1000 | 1000 | 4.3 | -4.3 |
| Valine, Leucine, and Isoleucine Metabolism | acetolactate synthase | ACLS | h_c + 2 pyr_c ⇋ alac_S_c + co2_c | 0 | 1000 | 4.3 | -4.3 |
| Cysteine Metabolism | sulfite reductase (NADPH2) | SULRi | 5 h_c + so3_c + 3 nadph_c ⇋ h2s_c + 3 h2o_c + 3 nadp_c | 0 | 1000 | 1.2 | -6.1 |
| Cofactor and Prosthetic Group Biosynthesis | FAD reductase | FADRx | nadh_c + fad_c + h_c ⇋ nad_c + fadh2_c | 0 | 1000 | 11 | -11 |
| Glycolysis/Gluconeogenesis | glyceraldehyde-3-phosphate dehydrogenase | GAPD | nadh_c + h_c + 13dpg_c ⇋ g3p_c + pi_c + nad_c | -1000 | 1000 | 71 | -71 |
| Pyruvate Metabolism | pyruvate synthase | POR5 | h_c + 2 flxr_c + co2_c + accoa_c ⇋ coa_c + 2 flxso_c + pyr_c | -1000 | 1000 | 1e+02 | -1e+02 |
| Threonine and Lysine Metabolism | homoserine dehydrogenase (NADPH) | HSDy | aspsa_c + nadph_c + h_c ⇋ hom_L_c + nadp_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Threonine and Lysine Metabolism | aspartate-semialdehyde dehydrogenase | ASAD | h_c + nadph_c + 4pasp_c ⇋ aspsa_c + nadp_c + pi_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Glutamate Metabolism | glutamate dehydrogenase (NADP) | GLUDy | h_c + akg_c + nadph_c + nh4_c ⇋ nadp_c + h2o_c + glu_L_c | -1000 | 1000 | 1.6e+02 | -1.6e+02 |
| Oxidative Phosphorylation | NADH dehydrogenase (ubiquinone-8 & 3 protons) (periplasm) | NADH16pp | nadh_c + 4 h_c + q8_c ⇋ nad_c + 3 h_p + q8h2_c | 0 | 1000 | 5.7e+02 | -2.3e+03 |
| Oxidative Phosphorylation | cytochrome oxidase bo3 (ubiquinol-8: 4 protons) (periplasm) | CYTBO3_4pp | 0.5 o2_c + q8h2_c + 4 h_c ⇋ h2o_c + q8_c + 4 h_p | 0 | 1000 | 5.7e+02 | -2.3e+03 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 2C-methyl-D-erythritol 2,4 cyclodiphosphate dehydratase | MECDPDH5 | 2mecdp_c + h_c + 2 flxr_c ⇋ h2mb4p_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (dmpp) | DMPPS | h_c + h2mb4p_c + nadh_c ⇋ dmpp_c + nad_c + h2o_c | 0 | 1000 | 0.0014 | -0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (ipdp) | IPDPS | nadh_c + h_c + h2mb4p_c ⇋ ipdp_c + nad_c + h2o_c | 0 | 1000 | 0.01 | -0.01 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | ATP synthase (four protons for one ATP) (periplasm) | ATPS4rpp | adp_c + pi_c + 4 h_p ⇋ 3 h_c + atp_c + h2o_c | -1000 | 1000 | 9.8e+02 | 9.8e+02 |
| Oxidative Phosphorylation | cytochrome oxidase bo3 (ubiquinol-8: 4 protons) (periplasm) | CYTBO3_4pp | 0.5 o2_c + q8h2_c + 4 h_c ⇋ h2o_c + q8_c + 4 h_p | 0 | 1000 | 5.7e+02 | 5.7e+02 |
| Glutamate Metabolism | glutamate dehydrogenase (NADP) | GLUDy | h_c + akg_c + nadph_c + nh4_c ⇋ nadp_c + h2o_c + glu_L_c | -1000 | 1000 | 1.6e+02 | 1.6e+02 |
| Citric Acid Cycle | aconitase (half-reaction A, Citrate hydro-lyase) | ACONTa | cit_c ⇋ h2o_c + acon_C_c | -1000 | 1000 | 5.3 | 5.3 |
| Valine, Leucine, and Isoleucine Metabolism | dihydroxy-acid dehydratase (2,3-dihydroxy-3-methylbutanoate) | DHAD1 | 23dhmb_c ⇋ h2o_c + 3mob_c | 0 | 1000 | 4.3 | 4.3 |
| Cysteine Metabolism | sulfite reductase (NADPH2) | SULRi | 5 h_c + so3_c + 3 nadph_c ⇋ h2s_c + 3 h2o_c + 3 nadp_c | 0 | 1000 | 1.2 | 3.7 |
| Threonine and Lysine Metabolism | dihydrodipicolinate synthase | DHDPS | pyr_c + aspsa_c ⇋ h_c + 2 h2o_c + 23dhdp_c | 0 | 1000 | 1.8 | 3.7 |
| Purine and Pyrimidine Biosynthesis | IMP cyclohydrolase | IMPC | fprica_c ⇋ imp_c + h2o_c | -1000 | 1000 | 2.7 | 2.7 |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate hydratase | IPPMIb | 3c3hmp_c ⇋ h2o_c + 2ippm_c | -1000 | 1000 | 2.2 | 2.2 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-dehydroquinate dehydratase, irreversible | DHQTi | 3dhq_c ⇋ h2o_c + 3dhsk_c | 0 | 1000 | 1.9 | 1.9 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxybutanoyl-CoA) | ECOAH1 | 3hbcoa_c ⇋ h2o_c + b2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyhexanoyl-CoA) | ECOAH2 | 3hhcoa_c ⇋ h2o_c + hx2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyoctanoyl-CoA) | ECOAH3 | 3hocoa_c ⇋ h2o_c + oc2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxydodecanoyl-CoA) | ECOAH5 | 3hddcoa_c ⇋ h2o_c + dd2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxydecanoyl-CoA) | ECOAH4 | 3hdcoa_c ⇋ h2o_c + dc2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Purine and Pyrimidine Biosynthesis | dihydroorotase | DHORTS | h_c + cbasp_c ⇋ dhor_S_c + h2o_c | -1000 | 1000 | 1.6 | 1.6 |
| Valine, Leucine, and Isoleucine Metabolism | Dihydroxy-acid dehydratase (2,3-dihydroxy-3-methylpentanoate) | DHAD2 | 23dhmp_c ⇋ 3mop_c + h2o_c | 0 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxytetradecanoyl-CoA) | ECOAH6 | 3htdcoa_c ⇋ td2coa_c + h2o_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyhexadecanoyl-CoA) | ECOAH7 | 3hhdcoa_c ⇋ h2o_c + hdd2coa_c | -1000 | 1000 | 1.4 | 1.4 |
| Arginine and Proline Metabolism | L-glutamate 5-semialdehyde dehydratase (spontaneous) | G5SADs | glu5sa_c ⇋ 1pyr5c_c + h_c + h2o_c | 0 | 1000 | 1.1 | 1.1 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydratase | PPNDH | h_c + pphn_c ⇋ phpyr_c + co2_c + h2o_c | 0 | 1000 | 0.91 | 0.91 |
| Histidine Metabolism | imidazoleglycerol-phosphate dehydratase | IGPDH | eig3p_c ⇋ imacp_c + h2o_c | 0 | 1000 | 0.47 | 0.47 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | indole-3-glycerol-phosphate synthase | IGPS | 2cpr5p_c + h_c ⇋ co2_c + 3ig3p_c + h2o_c | 0 | 1000 | 0.28 | 0.28 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tryptophan synthase (indoleglycerol phosphate) | TRPS1 | ser_L_c + 3ig3p_c ⇋ g3p_c + trp_L_c + h2o_c | 0 | 1000 | 0.28 | 0.28 |
| Nucleotide Salvage Pathway | ribonucleoside-diphosphate reductase (GDP) | RNDR2 | gdp_c + trdrd_c ⇋ dgdp_c + h2o_c + trdox_c | 0 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (CTP) (flavodoxin) | RNTR3c2 | 2 h_c + ctp_c + 2 flxr_c ⇋ dctp_c + h2o_c + 2 flxso_c | 0 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (UTP) (flavodoxin) | RNTR4c2 | 2 h_c + utp_c + 2 flxr_c ⇋ h2o_c + 2 flxso_c + dutp_c | 0 | 1000 | 0.13 | 0.13 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (ATP) (flavodoxin) | RNTR1c2 | atp_c + 2 h_c + 2 flxr_c ⇋ datp_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.13 | 0.13 |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster damage (peroxide, spontaneous) | FESD1s | 2 4fe4s_c + 2 h_c + h2o2_c ⇋ 2 h2o_c + 2 3fe4s_c + 2 fe3_c | 0 | 1000 | 0.019 | 0.038 |
| Cofactor and Prosthetic Group Biosynthesis | quinolinate synthase | QULNS | dhap_c + iasp_c ⇋ quln_c + pi_c + 2 h2o_c | 0 | 1000 | 0.011 | 0.022 |
| Cofactor and Prosthetic Group Biosynthesis | porphobilinogen synthase | PPBNGS | 2 5aop_c ⇋ 2 h2o_c + ppbng_c + h_c | 0 | 1000 | 0.0088 | 0.018 |
| Cofactor and Prosthetic Group Biosynthesis | 2C-methyl-D-erythritol 2,4 cyclodiphosphate dehydratase | MECDPDH5 | 2mecdp_c + h_c + 2 flxr_c ⇋ h2mb4p_c + 2 flxso_c + h2o_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (ipdp) | IPDPS | nadh_c + h_c + h2mb4p_c ⇋ ipdp_c + nad_c + h2o_c | 0 | 1000 | 0.01 | 0.01 |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin synthase | RBFSa | db4p_c + 4r5au_c ⇋ dmlz_c + pi_c + 2 h2o_c | 0 | 1000 | 0.0044 | 0.0088 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen-III synthase | UPP3S | hmbil_c ⇋ h2o_c + uppg3_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | coproporphyrinogen oxidase (O2 required) | CPPPGO | o2_c + 2 h_c + cpppg3_c ⇋ pppg9_c + 2 co2_c + 2 h2o_c | 0 | 1000 | 0.0011 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (dmpp) | DMPPS | h_c + h2mb4p_c + nadh_c ⇋ dmpp_c + nad_c + h2o_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | molybdenum cofactor synthase | MOCOS | mptamp_c + mobd_c + 2 h_c ⇋ h2o_c + amp_c + moco_c + cu2_c | 0 | 1000 | 0.0006 | 0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester dehydratase | OPMEACPD | hpmeACP_c ⇋ epmeACP_c + h2o_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester dehydratase | OGMEACPD | hgmeACP_c ⇋ h2o_c + egmeACP_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Pimeloyl-[ACP] methyl ester esterase | PMEACPE | h2o_c + pmeACP_c ⇋ pimACP_c + meoh_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Inorganic Ion Transport and Metabolism | molybdate transport via ABC system (periplasm) | MOBDabcpp | mobd_p + atp_c + h2o_c ⇋ mobd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.00064 | -0.00064 |
| Cofactor and Prosthetic Group Biosynthesis | Erythrose 4-phosphate dehydrogenase | E4PD | nad_c + h2o_c + e4p_c ⇋ nadh_c + 4per_c + 2 h_c | -1000 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-2-methyl-5-phosphomethylpyrimidine synthetase | AMPMS2 | nad_c + air_c + h2o_c ⇋ 4ampm_c + 2 for_c + 3 h_c + nadh_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 5'-deoxyadenosine nuclosidase | 5DOAN | dad_5_c + h2o_c ⇋ 5drib_c + ade_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | cyclic pyranopterin monophosphate synthase | CPMPS | gtp_c + h2o_c ⇋ ppi_c + cpmp_c | 0 | 1000 | 0.0012 | -0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | hydroxymethylbilane synthase | HMBS | h2o_c + 4 ppbng_c ⇋ hmbil_c + 4 nh4_c | 0 | 1000 | 0.0022 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | diaminohydroxyphosphoribosylaminopryrimidine deaminase (25drapp) | DHPPDA2 | h_c + 25drapp_c + h2o_c ⇋ 5apru_c + nh4_c | 0 | 1000 | 0.0022 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | pyrimidine phosphatase | PMDPHT | h2o_c + 5aprbu_c ⇋ pi_c + 4r5au_c | 0 | 1000 | 0.0022 | -0.0022 |
| Methionine Metabolism | S-adenosylhomocysteine nucleosidase | AHCYSNS | h2o_c + ahcys_c ⇋ ade_c + rhcys_c | 0 | 1000 | 0.0022 | -0.0022 |
| Methionine Metabolism | (2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran synthesis (spontaneous) | MTHTHFSs | h2o_c + mdhdhf_c ⇋ mththf_c | 0 | 1000 | 0.0022 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | 3-methyl-2-oxobutanoate hydroxymethyltransferase | MOHMT | 3mob_c + mlthf_c + h2o_c ⇋ thf_c + 2dhp_c | 0 | 1000 | 0.0028 | -0.0028 |
| Anaplerotic Reactions | malate synthase | MALS | glx_c + accoa_c + h2o_c ⇋ coa_c + h_c + mal_L_c | 0 | 1000 | 0.0033 | -0.0033 |
| Folate Metabolism | Glycolaldehyde dehydrogenase | GCALDD | nad_c + h2o_c + gcald_c ⇋ nadh_c + glyclt_c + 2 h_c | 0 | 1000 | 0.0033 | -0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin triphosphate pyrophosphatase | DNTPPA | ahdt_c + h2o_c ⇋ ppi_c + dhpmp_c + h_c | 0 | 1000 | 0.0033 | -0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin monophosphate dephosphorylase | DNMPPA | dhpmp_c + h2o_c ⇋ dhnpt_c + pi_c | 0 | 1000 | 0.0033 | -0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase I | GTPCI | h2o_c + gtp_c ⇋ ahdt_c + for_c + h_c | 0 | 1000 | 0.0033 | -0.0033 |
| Methionine Metabolism | methionine adenosyltransferase | METAT | met_L_c + atp_c + h2o_c ⇋ amet_c + ppi_c + pi_c | 0 | 1000 | 0.0044 | -0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase II (25drapp) | GTPCII2 | gtp_c + 3 h2o_c ⇋ ppi_c + 25drapp_c + for_c + 2 h_c | 0 | 1000 | 0.0022 | -0.0066 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-sugar hydrolase | USHD | u23ga_c + h2o_c ⇋ ump_c + 2 h_c + lipidX_c | 0 | 1000 | 0.096 | -0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | KDO(2)-lipid IV A transport via ABC system (periplasm to extracellular) | K2L4Aabctex | kdo2lipid4_p + h2o_c + atp_c ⇋ kdo2lipid4_e + adp_c + h_c + pi_c | 0 | 1000 | 0.096 | -0.096 |
| Transport, Inner Membrane | KDO(2)-lipid IV A transport via ABC system (periplasm) | K2L4Aabcpp | kdo2lipid4_c + atp_c + h2o_c ⇋ h_c + adp_c + kdo2lipid4_p + pi_c | 0 | 1000 | 0.096 | -0.096 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:1, periplasm) | PE161abcpp | h2o_c + pe161_c + atp_c ⇋ adp_c + h_c + pi_c + pe161_p | 0 | 1000 | 0.1 | -0.1 |
| Nucleotide Salvage Pathway | dUTP diphosphatase | DUTPDP | h2o_c + dutp_c ⇋ ppi_c + dump_c + h_c | 0 | 1000 | 0.13 | -0.13 |
| Cell Envelope Biosynthesis | undecaprenyl-diphosphatase | UDCPDP | h2o_c + udcpdp_c ⇋ udcpp_c + h_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-manno-octulosonate-8-phosphatase | KDOPP | h2o_c + kdo8p_c ⇋ kdo_c + pi_c | 0 | 1000 | 0.19 | -0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-acetylglucosamine deacetylase | UHGADA | h2o_c + u3aga_c ⇋ ac_c + u3hga_c | 0 | 1000 | 0.19 | -0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy -D-manno-octulosonic -acid 8-phosphate synthase | KDOPS | ara5p_c + pep_c + h2o_c ⇋ kdo8p_c + pi_c | 0 | 1000 | 0.19 | -0.19 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:0, periplasm) | PE160abcpp | h2o_c + pe160_c + atp_c ⇋ pe160_p + adp_c + h_c + pi_c | 0 | 1000 | 0.23 | -0.23 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (dodecanoate) | FACOAE120 | ddcacoa_c + h2o_c ⇋ coa_c + ddca_c + h_c | 0 | 1000 | 0.38 | -0.38 |
| Histidine Metabolism | phosphoribosyl-AMP cyclohydrolase | PRAMPC | prbamp_c + h2o_c ⇋ prfp_c | 0 | 1000 | 0.47 | -0.47 |
| Histidine Metabolism | phosphoribosyl-ATP pyrophosphatase | PRATPP | prbatp_c + h2o_c ⇋ ppi_c + prbamp_c + h_c | 0 | 1000 | 0.47 | -0.47 |
| Histidine Metabolism | histidinol-phosphatase | HISTP | hisp_c + h2o_c ⇋ histd_c + pi_c | 0 | 1000 | 0.47 | -0.47 |
| Histidine Metabolism | histidinol dehydrogenase | HISTD | histd_c + 2 nad_c + h2o_c ⇋ 2 nadh_c + his_L_c + 3 h_c | 0 | 1000 | 0.47 | -0.47 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecanoate) | FACOAE160 | pmtcoa_c + h2o_c ⇋ coa_c + h_c + hdca_c | 0 | 1000 | 0.63 | -0.63 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecenoate) | FACOAE161 | hdcoa_c + h2o_c ⇋ coa_c + hdcea_c + h_c | 0 | 1000 | 0.74 | -0.74 |
| Methionine Metabolism | cystathionine b-lyase | CYSTL | cyst_L_c + h2o_c ⇋ pyr_c + hcys_L_c + nh4_c | 0 | 1000 | 0.76 | -0.76 |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | -0.79 |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | -1.2 |
| Purine and Pyrimidine Biosynthesis | IMP dehydrogenase | IMPD | nad_c + h2o_c + imp_c ⇋ nadh_c + h_c + xmp_c | 0 | 1000 | 1.2 | -1.2 |
| Cysteine Metabolism | Sulfate adenyltransferase | SADT2 | so4_c + atp_c + h2o_c + gtp_c ⇋ aps_c + ppi_c + pi_c + gdp_c | 0 | 1000 | 1.2 | -1.2 |
| Cysteine Metabolism | 3',5'-bisphosphate nucleotidase | BPNT | pap_c + h2o_c ⇋ amp_c + pi_c | 0 | 1000 | 1.2 | -1.2 |
| Arginine and Proline Metabolism | acetylornithine deacetylase | ACODA | acorn_c + h2o_c ⇋ ac_c + orn_c | 0 | 1000 | 1.5 | -1.5 |
| Threonine and Lysine Metabolism | succinyl-diaminopimelate desuccinylase | SDPDS | sl26da_c + h2o_c ⇋ succ_c + 26dap_LL_c | 0 | 1000 | 1.8 | -1.8 |
| Threonine and Lysine Metabolism | tetrahydrodipicolinate succinylase | THDPS | thdp_c + h2o_c + succoa_c ⇋ coa_c + sl2a6o_c | 0 | 1000 | 1.8 | -1.8 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase | DDPA | e4p_c + h2o_c + pep_c ⇋ 2dda7p_c + pi_c | 0 | 1000 | 1.9 | -1.9 |
| Purine and Pyrimidine Biosynthesis | glutamine phosphoribosyldiphosphate amidotransferase | GLUPRT | gln_L_c + prpp_c + h2o_c ⇋ ppi_c + glu_L_c + pram_c | 0 | 1000 | 2.2 | -2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Valine, Leucine, and Isoleucine Metabolism | 3-isopropylmalate dehydratase | IPPMIa | 2ippm_c + h2o_c ⇋ 3c2hmp_c | -1000 | 1000 | 2.2 | -2.2 |
| Valine, Leucine, and Isoleucine Metabolism | 2-isopropylmalate synthase | IPPS | 3mob_c + h2o_c + accoa_c ⇋ coa_c + h_c + 3c3hmp_c | 0 | 1000 | 2.2 | -2.2 |
| Unassigned | HCO3 equilibration reaction | HCO3E | co2_c + h2o_c ⇋ h_c + hco3_c | -1000 | 1000 | 2.6 | -2.6 |
| Folate Metabolism | methenyltetrahydrofolate cyclohydrolase | MTHFC | methf_c + h2o_c ⇋ h_c + 10fthf_c | -1000 | 1000 | 4.9 | -4.9 |
| Citric Acid Cycle | fumarase | FUM | h2o_c + fum_c ⇋ mal_L_c | -1000 | 1000 | 5.1 | -5.1 |
| Citric Acid Cycle | aconitase (half-reaction B, Isocitrate hydro-lyase) | ACONTb | acon_C_c + h2o_c ⇋ icit_c | -1000 | 1000 | 5.3 | -5.3 |
| Citric Acid Cycle | citrate synthase | CS | h2o_c + oaa_c + accoa_c ⇋ coa_c + cit_c + h_c | 0 | 1000 | 5.3 | -5.3 |
| Glycolysis/Gluconeogenesis | fructose-bisphosphatase | FBP | h2o_c + fdp_c ⇋ pi_c + f6p_c | 0 | 1000 | 28 | -28 |
| PRK+RuBisCO | PRK+RBC | co2_c + atp_c + ru5p_D_c + h2o_c ⇋ 3 h_c + adp_c + 2 3pg_c | 0 | 1000 | 36 | -36 | |
| Glycine and Serine Metabolism | glycine hydroxymethyltransferase, reversible | GHMT2r | gly_c + mlthf_c + h2o_c ⇋ thf_c + ser_L_c | -1000 | 1000 | 57 | -57 |
| Threonine and Lysine Metabolism | threonine synthase | THRS | h2o_c + phom_c ⇋ pi_c + thr_L_c | 0 | 1000 | 1.3e+02 | -1.3e+02 |
| Anaplerotic Reactions | phosphoenolpyruvate carboxylase | PPC | h2o_c + co2_c + pep_c ⇋ h_c + pi_c + oaa_c | 0 | 1000 | 1.4e+02 | -1.4e+02 |
| Glycolysis/Gluconeogenesis | phosphoenolpyruvate synthase | PPS | pyr_c + h2o_c + atp_c ⇋ amp_c + pep_c + 2 h_c + pi_c | 0 | 1000 | 1.4e+02 | -1.4e+02 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -2.4e+02 | |
| Transport, Inner Membrane | H2O transport via diffusion (periplasm) | H2Otpp | h2o_c ⇋ h2o_p | -1000 | 1000 | 9.3e+02 | -9.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | L-aspartate oxidase | ASPO6 | o2_c + asp_L_c ⇋ h_c + iasp_c + h2o2_c | 0 | 1000 | 0.011 | 0.011 |
| Citric Acid Cycle | malate oxidase | MOX | o2_c + mal_L_c ⇋ h2o2_c + oaa_c | -1000 | 1000 | 0.0069 | 0.0069 |
| Cofactor and Prosthetic Group Biosynthesis | pyridoxine 5'-phosphate oxidase | PDX5POi | pdx5p_c + o2_c ⇋ h2o2_c + pydx5p_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | iron-sulfur cluster damage (peroxide, spontaneous) | FESD1s | 2 4fe4s_c + 2 h_c + h2o2_c ⇋ 2 h2o_c + 2 3fe4s_c + 2 fe3_c | 0 | 1000 | 0.019 | -0.019 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cysteine Metabolism | sulfite reductase (NADPH2) | SULRi | 5 h_c + so3_c + 3 nadph_c ⇋ h2s_c + 3 h2o_c + 3 nadp_c | 0 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | cysteine synthase | CYSS | acser_c + h2s_c ⇋ ac_c + cys_L_c + h_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Unassigned | HCO3 equilibration reaction | HCO3E | co2_c + h2o_c ⇋ h_c + hco3_c | -1000 | 1000 | 2.6 | 2.6 |
| Membrane Lipid Metabolism | acetyl-CoA carboxylase | ACCOAC | hco3_c + atp_c + accoa_c ⇋ adp_c + h_c + malcoa_c + pi_c | 0 | 1000 | 0.38 | -0.38 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase | AIRC2 | hco3_c + air_c + atp_c ⇋ 5caiz_c + adp_c + h_c + pi_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | cystathionine b-lyase | CYSTL | cyst_L_c + h2o_c ⇋ pyr_c + hcys_L_c + nh4_c | 0 | 1000 | 0.76 | 0.76 |
| Methionine Metabolism | S-ribosylhomocysteine cleavage enzyme | RHCCE | rhcys_c ⇋ dhptd_c + hcys_L_c | 0 | 1000 | 0.0022 | 0.0022 |
| Methionine Metabolism | methionine synthase | METS | hcys_L_c + 5mthf_c ⇋ h_c + met_L_c + thf_c | 0 | 1000 | 0.76 | -0.76 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecanoate) | FACOAE160 | pmtcoa_c + h2o_c ⇋ coa_c + h_c + hdca_c | 0 | 1000 | 0.63 | 0.63 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:0) | AACPS3 | ACP_c + atp_c + hdca_c ⇋ ppi_c + palmACP_c + amp_c | 0 | 1000 | 0.63 | -0.63 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecenoate) | FACOAE161 | hdcoa_c + h2o_c ⇋ coa_c + hdcea_c + h_c | 0 | 1000 | 0.74 | 0.74 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:1) | AACPS4 | ACP_c + hdcea_c + atp_c ⇋ ppi_c + hdeACP_c + amp_c | 0 | 1000 | 0.74 | -0.74 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-cis-2-trans-enoyl-CoA isomerase | CTECOAI7 | hdd2coa_c ⇋ hdcoa_c | -1000 | 1000 | 0.74 | 0.74 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecenoate) | FACOAE161 | hdcoa_c + h2o_c ⇋ coa_c + hdcea_c + h_c | 0 | 1000 | 0.74 | -0.74 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyhexadecanoyl-CoA) | ECOAH7 | 3hhdcoa_c ⇋ h2o_c + hdd2coa_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (hexadecanoyl-CoA) | ACOAD7f | hdd2coa_c + fadh2_c ⇋ pmtcoa_c + fad_c | -1000 | 1000 | 0.63 | -0.63 |
| Membrane Lipid Metabolism | 3-cis-2-trans-enoyl-CoA isomerase | CTECOAI7 | hdd2coa_c ⇋ hdcoa_c | -1000 | 1000 | 0.74 | -0.74 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:1) | AACPS4 | ACP_c + hdcea_c + atp_c ⇋ ppi_c + hdeACP_c + amp_c | 0 | 1000 | 0.74 | 0.74 |
| Glycerophospholipid Metabolism | 1-hexadec-7-enoyl-sn-glycerol 3-phosphate O-acyltransferase (n-C16:1) | AGPAT161 | hdeACP_c + 1hdec9eg3p_c ⇋ ACP_c + pa161_c | 0 | 1000 | 0.37 | -0.37 |
| Glycerophospholipid Metabolism | glycerol-3-phosphate acyltransferase (C16:1) | G3PAT161 | hdeACP_c + glyc3p_c ⇋ ACP_c + 1hdec9eg3p_c | 0 | 1000 | 0.37 | -0.37 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester reductase | OGMEACPR | ogmeACP_c + h_c + nadph_c ⇋ hgmeACP_c + nadp_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester dehydratase | OGMEACPD | hgmeACP_c ⇋ h2o_c + egmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | histidinol dehydrogenase | HISTD | histd_c + 2 nad_c + h2o_c ⇋ 2 nadh_c + his_L_c + 3 h_c | 0 | 1000 | 0.47 | 0.47 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | histidinol-phosphate transaminase | HSTPT | imacp_c + glu_L_c ⇋ akg_c + hisp_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | histidinol-phosphatase | HISTP | hisp_c + h2o_c ⇋ histd_c + pi_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | histidinol-phosphatase | HISTP | hisp_c + h2o_c ⇋ histd_c + pi_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | histidinol dehydrogenase | HISTD | histd_c + 2 nad_c + h2o_c ⇋ 2 nadh_c + his_L_c + 3 h_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | hydroxymethylbilane synthase | HMBS | h2o_c + 4 ppbng_c ⇋ hmbil_c + 4 nh4_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen-III synthase | UPP3S | hmbil_c ⇋ h2o_c + uppg3_c | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | homoserine dehydrogenase (NADPH) | HSDy | aspsa_c + nadph_c + h_c ⇋ hom_L_c + nadp_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Methionine Metabolism | homoserine O-succinyltransferase | HSST | hom_L_c + succoa_c ⇋ suchms_c + coa_c | 0 | 1000 | 0.76 | -0.76 |
| Threonine and Lysine Metabolism | homoserine kinase | HSK | hom_L_c + atp_c ⇋ phom_c + adp_c + h_c | 0 | 1000 | 1.3e+02 | -1.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester reductase | OPMEACPR | h_c + nadph_c + opmeACP_c ⇋ nadp_c + hpmeACP_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester dehydratase | OPMEACPD | hpmeACP_c ⇋ epmeACP_c + h2o_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyhexanoyl-CoA) | ECOAH2 | 3hhcoa_c ⇋ h2o_c + hx2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (hexanoyl-CoA) | ACOAD2f | fadh2_c + hx2coa_c ⇋ hxcoa_c + fad_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (hexanoyl-CoA) | ACOAD2f | fadh2_c + hx2coa_c ⇋ hxcoa_c + fad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (hexanoyl-CoA) (r) | ACACT3r | hxcoa_c + accoa_c ⇋ coa_c + 3oocoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | L-aspartate oxidase | ASPO6 | o2_c + asp_L_c ⇋ h_c + iasp_c + h2o2_c | 0 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | quinolinate synthase | QULNS | dhap_c + iasp_c ⇋ quln_c + pi_c + 2 h2o_c | 0 | 1000 | 0.011 | -0.011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Citric Acid Cycle | aconitase (half-reaction B, Isocitrate hydro-lyase) | ACONTb | acon_C_c + h2o_c ⇋ icit_c | -1000 | 1000 | 5.3 | 5.3 |
| Citric Acid Cycle | isocitrate dehydrogenase (NADP) | ICDHyr | nadp_c + icit_c ⇋ akg_c + nadph_c + co2_c | -1000 | 1000 | 5.3 | -5.3 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | isoleucine transaminase | ILETA | glu_L_c + 3mop_c ⇋ ile_L_c + akg_c | -1000 | 1000 | 1.4 | 1.4 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | imidazoleglycerol-phosphate dehydratase | IGPDH | eig3p_c ⇋ imacp_c + h2o_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | histidinol-phosphate transaminase | HSTPT | imacp_c + glu_L_c ⇋ akg_c + hisp_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | IMP cyclohydrolase | IMPC | fprica_c ⇋ imp_c + h2o_c | -1000 | 1000 | 2.7 | 2.7 |
| Purine and Pyrimidine Biosynthesis | IMP dehydrogenase | IMPD | nad_c + h2o_c + imp_c ⇋ nadh_c + h_c + xmp_c | 0 | 1000 | 1.2 | -1.2 |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate synthase | ADSS | asp_L_c + gtp_c + imp_c ⇋ 2 h_c + dcamp_c + pi_c + gdp_c | 0 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (ipdp) | IPDPS | nadh_c + h_c + h2mb4p_c ⇋ ipdp_c + nad_c + h2o_c | 0 | 1000 | 0.01 | 0.01 |
| Cofactor and Prosthetic Group Biosynthesis | geranyltranstransferase | GRTT | ipdp_c + grdp_c ⇋ frdp_c + ppi_c | 0 | 1000 | 0.0014 | -0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | dimethylallyltranstransferase | DMATT | dmpp_c + ipdp_c ⇋ grdp_c + ppi_c | 0 | 1000 | 0.0014 | -0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | Undecaprenyl diphosphate synthase | UDCPDPS | 8 ipdp_c + frdp_c ⇋ 8 ppi_c + udcpdp_c | 0 | 1000 | 0.00027 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | Octaprenyl pyrophosphate synthase | OCTDPS | 5 ipdp_c + frdp_c ⇋ octdp_c + 5 ppi_c | 0 | 1000 | 0.0011 | -0.0055 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis | I2FE2SS | 2 fe2_c + iscu_c + fadh2_c + 2 iscssh_c ⇋ 6 h_c + iscu_2fe2s_c + fad_c + 2 iscs_c | 0 | 1000 | 0.0014 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis II | I2FE2SS2 | 2 fe2_c + 2 iscssh_c + iscu_2fe2s_c + fadh2_c ⇋ fad_c + 2 iscs_c + 6 h_c + iscu_2fe2s2_c | 0 | 1000 | 0.0013 | 0.0026 |
| Cofactor and Prosthetic Group Biosynthesis | MoaD sulfuration (nadh, assumed) | MOADSUx | nadh_c + iscssh_c + moadamp_c ⇋ amp_c + nad_c + iscs_c + moadcosh_c | 0 | 1000 | 0.0024 | 0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] regeneration | I2FE2SR | 2fe1s_c + iscssh_c + iscu_c ⇋ iscs_c + iscu_2fe2s_c + 4 h_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | ISC Cysteine desulfuration | ICYSDS | iscs_c + cys_L_c ⇋ ala_L_c + iscssh_c | 0 | 1000 | 0.0089 | -0.0089 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | ISC Cysteine desulfuration | ICYSDS | iscs_c + cys_L_c ⇋ ala_L_c + iscssh_c | 0 | 1000 | 0.0089 | 0.0089 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] regeneration | I2FE2SR | 2fe1s_c + iscssh_c + iscu_c ⇋ iscs_c + iscu_2fe2s_c + 4 h_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | MoaD sulfuration (nadh, assumed) | MOADSUx | nadh_c + iscssh_c + moadamp_c ⇋ amp_c + nad_c + iscs_c + moadcosh_c | 0 | 1000 | 0.0024 | -0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis II | I2FE2SS2 | 2 fe2_c + 2 iscssh_c + iscu_2fe2s_c + fadh2_c ⇋ fad_c + 2 iscs_c + 6 h_c + iscu_2fe2s2_c | 0 | 1000 | 0.0013 | -0.0026 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis | I2FE2SS | 2 fe2_c + iscu_c + fadh2_c + 2 iscssh_c ⇋ 6 h_c + iscu_2fe2s_c + fad_c + 2 iscs_c | 0 | 1000 | 0.0014 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Transfer | I4FE4ST | iscu_4fe4s_c + 4 h_c ⇋ iscu_c + 4fe4s_c | 0 | 1000 | 0.0013 | 0.0013 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Transfer | I2FE2ST | iscu_2fe2s_c + 4 h_c ⇋ iscu_c + 2fe2s_c | 0 | 1000 | 0.00014 | 0.00014 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] regeneration | I2FE2SR | 2fe1s_c + iscssh_c + iscu_c ⇋ iscs_c + iscu_2fe2s_c + 4 h_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis | I2FE2SS | 2 fe2_c + iscu_c + fadh2_c + 2 iscssh_c ⇋ 6 h_c + iscu_2fe2s_c + fad_c + 2 iscs_c | 0 | 1000 | 0.0014 | -0.0014 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis | I2FE2SS | 2 fe2_c + iscu_c + fadh2_c + 2 iscssh_c ⇋ 6 h_c + iscu_2fe2s_c + fad_c + 2 iscs_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] regeneration | I2FE2SR | 2fe1s_c + iscssh_c + iscu_c ⇋ iscs_c + iscu_2fe2s_c + 4 h_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Transfer | I2FE2ST | iscu_2fe2s_c + 4 h_c ⇋ iscu_c + 2fe2s_c | 0 | 1000 | 0.00014 | -0.00014 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis II | I2FE2SS2 | 2 fe2_c + 2 iscssh_c + iscu_2fe2s_c + fadh2_c ⇋ fad_c + 2 iscs_c + 6 h_c + iscu_2fe2s2_c | 0 | 1000 | 0.0013 | -0.0013 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | ISC [2Fe-2S] Synthesis II | I2FE2SS2 | 2 fe2_c + 2 iscssh_c + iscu_2fe2s_c + fadh2_c ⇋ fad_c + 2 iscs_c + 6 h_c + iscu_2fe2s2_c | 0 | 1000 | 0.0013 | 0.0013 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Reduction | I4FE4SR | iscu_2fe2s2_c + 2 h_c + fadh2_c ⇋ fad_c + iscu_4fe4s_c | 0 | 1000 | 0.0013 | -0.0013 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Reduction | I4FE4SR | iscu_2fe2s2_c + 2 h_c + fadh2_c ⇋ fad_c + iscu_4fe4s_c | 0 | 1000 | 0.0013 | 0.0013 |
| Cofactor and Prosthetic Group Biosynthesis | ISC [4Fe-4S] Transfer | I4FE4ST | iscu_4fe4s_c + 4 h_c ⇋ iscu_c + 4fe4s_c | 0 | 1000 | 0.0013 | -0.0013 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | potassium transport in via proton symport (periplasm) | Kt2pp | k_p + h_p ⇋ h_c + k_c | 0 | 1000 | 0.96 | 0.96 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.96 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-manno-octulosonate-8-phosphatase | KDOPP | h2o_c + kdo8p_c ⇋ kdo_c + pi_c | 0 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-manno-octulosonate cytidylyltransferase | KDOCT2 | ctp_c + kdo_c ⇋ ckdo_c + ppi_c | 0 | 1000 | 0.19 | -0.19 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT2 | ckdo_c + kdolipid4_c ⇋ h_c + cmp_c + kdo2lipid4_c | 0 | 1000 | 0.096 | 0.096 |
| Transport, Inner Membrane | KDO(2)-lipid IV A transport via ABC system (periplasm) | K2L4Aabcpp | kdo2lipid4_c + atp_c + h2o_c ⇋ h_c + adp_c + kdo2lipid4_p + pi_c | 0 | 1000 | 0.096 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy -D-manno-octulosonic -acid 8-phosphate synthase | KDOPS | ara5p_c + pep_c + h2o_c ⇋ kdo8p_c + pi_c | 0 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-manno-octulosonate-8-phosphatase | KDOPP | h2o_c + kdo8p_c ⇋ kdo_c + pi_c | 0 | 1000 | 0.19 | -0.19 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT | ckdo_c + lipidA_c ⇋ kdolipid4_c + cmp_c + h_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT2 | ckdo_c + kdolipid4_c ⇋ h_c + cmp_c + kdo2lipid4_c | 0 | 1000 | 0.096 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | leucine transaminase (irreversible) | LEUTAi | glu_L_c + 4mop_c ⇋ leu_L_c + akg_c | 0 | 1000 | 2.2 | 2.2 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | Tetraacyldisaccharide 4'kinase | TDSK | lipidAds_c + atp_c ⇋ adp_c + h_c + lipidA_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-D-manno-octulosonic acid transferase | MOAT | ckdo_c + lipidA_c ⇋ kdolipid4_c + cmp_c + h_c | 0 | 1000 | 0.096 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | Lipid A disaccaride synthase | LPADSS | u23ga_c + lipidX_c ⇋ udp_c + h_c + lipidAds_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | Tetraacyldisaccharide 4'kinase | TDSK | lipidAds_c + atp_c ⇋ adp_c + h_c + lipidA_c | 0 | 1000 | 0.096 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-sugar hydrolase | USHD | u23ga_c + h2o_c ⇋ ump_c + 2 h_c + lipidX_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | Lipid A disaccaride synthase | LPADSS | u23ga_c + lipidX_c ⇋ udp_c + h_c + lipidAds_c | 0 | 1000 | 0.096 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | diaminopimelate decarboxylase | DAPDC | h_c + 26dap_M_c ⇋ co2_c + lys_L_c | 0 | 1000 | 1.7 | 1.7 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.7 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Citric Acid Cycle | fumarase | FUM | h2o_c + fum_c ⇋ mal_L_c | -1000 | 1000 | 5.1 | 5.1 |
| Anaplerotic Reactions | malate synthase | MALS | glx_c + accoa_c + h2o_c ⇋ coa_c + h_c + mal_L_c | 0 | 1000 | 0.0033 | 0.0033 |
| Citric Acid Cycle | malate oxidase | MOX | o2_c + mal_L_c ⇋ h2o2_c + oaa_c | -1000 | 1000 | 0.0069 | -0.0069 |
| Citric Acid Cycle | malate dehydrogenase | MDH | nad_c + mal_L_c ⇋ nadh_c + h_c + oaa_c | -1000 | 1000 | 5.1 | -5.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | Malonyl-CoA-ACP transacylase | MCOATA | ACP_c + malcoa_c ⇋ coa_c + malACP_c | -1000 | 1000 | 0.38 | 0.38 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester synthase | OPMEACPS | gmeACP_c + h_c + malACP_c ⇋ ACP_c + opmeACP_c + co2_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester synthase | OGMEACPS | h_c + malACP_c + malcoame_c ⇋ ogmeACP_c + co2_c + coa_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] synthase (n-C14:0) | 3OAS140 | ddcaACP_c + h_c + malACP_c ⇋ ACP_c + 3omrsACP_c + co2_c | 0 | 1000 | 0.38 | -0.38 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acetyl-CoA carboxylase | ACCOAC | hco3_c + atp_c + accoa_c ⇋ adp_c + h_c + malcoa_c + pi_c | 0 | 1000 | 0.38 | 0.38 |
| Cofactor and Prosthetic Group Biosynthesis | Malonyl-CoA methyltransferase | MALCOAMT | amet_c + malcoa_c ⇋ ahcys_c + malcoame_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Membrane Lipid Metabolism | Malonyl-CoA-ACP transacylase | MCOATA | ACP_c + malcoa_c ⇋ coa_c + malACP_c | -1000 | 1000 | 0.38 | -0.38 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Malonyl-CoA methyltransferase | MALCOAMT | amet_c + malcoa_c ⇋ ahcys_c + malcoame_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester synthase | OGMEACPS | h_c + malACP_c + malcoame_c ⇋ ogmeACP_c + co2_c + coa_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | 4,5-dihydroxy-2,3-pentanedione cyclization (spontaneous) | DHPTDCs2 | dhptd_c ⇋ mdhdhf_c | 0 | 1000 | 0.0022 | 0.0022 |
| Methionine Metabolism | (2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran synthesis (spontaneous) | MTHTHFSs | h2o_c + mdhdhf_c ⇋ mththf_c | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Pimeloyl-[ACP] methyl ester esterase | PMEACPE | h2o_c + pmeACP_c ⇋ pimACP_c + meoh_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Transport, Inner Membrane | Methanol reversible transport via diffusion (periplasm) | MEOHtrpp | meoh_c ⇋ meoh_p | -1000 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | methionine synthase | METS | hcys_L_c + 5mthf_c ⇋ h_c + met_L_c + thf_c | 0 | 1000 | 0.76 | 0.76 |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Biotin synthase | BTS5 | 2fe2s_c + amet_c + dtbt_c ⇋ 2fe1s_c + met_L_c + h_c + btn_c + dad_5_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Methionine Metabolism | methionine adenosyltransferase | METAT | met_L_c + atp_c + h2o_c ⇋ amet_c + ppi_c + pi_c | 0 | 1000 | 0.0044 | -0.0044 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.76 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Folate Metabolism | methylenetetrahydrofolate dehydrogenase (NADP) | MTHFD | nadp_c + mlthf_c ⇋ nadph_c + methf_c | -1000 | 1000 | 4.9 | 4.9 |
| Folate Metabolism | methenyltetrahydrofolate cyclohydrolase | MTHFC | methf_c + h2o_c ⇋ h_c + 10fthf_c | -1000 | 1000 | 4.9 | -4.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | magnesium (Mg+2) transport in/out via proton antiport (periplasm) | MG2t3_2pp | 2 h_c + mg2_p ⇋ mg2_c + 2 h_p | -1000 | 1000 | 0.043 | 0.043 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.043 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Folate Metabolism | Glycine Cleavage System | GLYCL | gly_c + nad_c + thf_c ⇋ mlthf_c + nadh_c + co2_c + nh4_c | 0 | 1000 | 63 | 63 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 | |
| Cofactor and Prosthetic Group Biosynthesis | 3-methyl-2-oxobutanoate hydroxymethyltransferase | MOHMT | 3mob_c + mlthf_c + h2o_c ⇋ thf_c + 2dhp_c | 0 | 1000 | 0.0028 | -0.0028 |
| Nucleotide Salvage Pathway | thymidylate synthase | TMDS | mlthf_c + dump_c ⇋ dhf_c + dtmp_c | 0 | 1000 | 0.13 | -0.13 |
| Folate Metabolism | 5,10-methylenetetrahydrofolate reductase (NADH) | MTHFR2 | nadh_c + mlthf_c + 2 h_c ⇋ nad_c + 5mthf_c | 0 | 1000 | 0.76 | -0.76 |
| Folate Metabolism | methylenetetrahydrofolate dehydrogenase (NADP) | MTHFD | nadp_c + mlthf_c ⇋ nadph_c + methf_c | -1000 | 1000 | 4.9 | -4.9 |
| Glycine and Serine Metabolism | glycine hydroxymethyltransferase, reversible | GHMT2r | gly_c + mlthf_c + h2o_c ⇋ thf_c + ser_L_c | -1000 | 1000 | 57 | -57 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | manganese transport in via permease (no H+) | MN2tpp | mn2_p ⇋ mn2_c | 0 | 1000 | 0.0034 | 0.0034 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0034 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase sulfurylase | MPTSS | moadcoo_c + h_c + atp_c ⇋ ppi_c + moadamp_c | 0 | 1000 | 0.0024 | 0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | MoaD sulfuration (nadh, assumed) | MOADSUx | nadh_c + iscssh_c + moadamp_c ⇋ amp_c + nad_c + iscs_c + moadcosh_c | 0 | 1000 | 0.0024 | -0.0024 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase | MPTS | 2 moadcosh_c + cu2_c + cpmp_c ⇋ mpt_c + 5 h_c + 2 moadcoo_c | 0 | 1000 | 0.0012 | 0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase sulfurylase | MPTSS | moadcoo_c + h_c + atp_c ⇋ ppi_c + moadamp_c | 0 | 1000 | 0.0024 | -0.0024 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | MoaD sulfuration (nadh, assumed) | MOADSUx | nadh_c + iscssh_c + moadamp_c ⇋ amp_c + nad_c + iscs_c + moadcosh_c | 0 | 1000 | 0.0024 | 0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase | MPTS | 2 moadcosh_c + cu2_c + cpmp_c ⇋ mpt_c + 5 h_c + 2 moadcoo_c | 0 | 1000 | 0.0012 | -0.0024 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | molybdate transport via ABC system (periplasm) | MOBDabcpp | mobd_p + atp_c + h2o_c ⇋ mobd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.00064 | 0.00064 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -3.5e-05 | |
| Cofactor and Prosthetic Group Biosynthesis | molybdenum cofactor synthase | MOCOS | mptamp_c + mobd_c + 2 h_c ⇋ h2o_c + amp_c + moco_c + cu2_c | 0 | 1000 | 0.0006 | -0.0006 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | molybdenum cofactor synthase | MOCOS | mptamp_c + mobd_c + 2 h_c ⇋ h2o_c + amp_c + moco_c + cu2_c | 0 | 1000 | 0.0006 | 0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdenum cofactor synthase | BMOCOS | mptamp_c + moco_c ⇋ bmoco_c + cu2_c + amp_c | 0 | 1000 | 0.0006 | -0.0006 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase | MPTS | 2 moadcosh_c + cu2_c + cpmp_c ⇋ mpt_c + 5 h_c + 2 moadcoo_c | 0 | 1000 | 0.0012 | 0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin adenylyltransferase | MPTAT | mpt_c + h_c + atp_c ⇋ mptamp_c + ppi_c | 0 | 1000 | 0.0012 | -0.0012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin adenylyltransferase | MPTAT | mpt_c + h_c + atp_c ⇋ mptamp_c + ppi_c | 0 | 1000 | 0.0012 | 0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdenum cofactor synthase | BMOCOS | mptamp_c + moco_c ⇋ bmoco_c + cu2_c + amp_c | 0 | 1000 | 0.0006 | -0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | molybdenum cofactor synthase | MOCOS | mptamp_c + mobd_c + 2 h_c ⇋ h2o_c + amp_c + moco_c + cu2_c | 0 | 1000 | 0.0006 | -0.0006 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | (2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran synthesis (spontaneous) | MTHTHFSs | h2o_c + mdhdhf_c ⇋ mththf_c | 0 | 1000 | 0.0022 | 0.0022 |
| Sink needed to allow (2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran to leave system | DM_MTHTHF | mththf_c ⇋ | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Inner Membrane | Na+/Proline-L symporter (periplasm) | PROt4pp | na1_p + pro_L_p ⇋ pro_L_c + na1_c | 0 | 1000 | 0.026 | 0.026 |
| Inorganic Ion Transport and Metabolism | calcium / sodium antiporter (1:1) | CAt6pp | ca2_p + na1_c ⇋ na1_p + ca2_c | -1000 | 1000 | 0.026 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | NADH dehydrogenase (ubiquinone-8 & 3 protons) (periplasm) | NADH16pp | nadh_c + 4 h_c + q8_c ⇋ nad_c + 3 h_p + q8h2_c | 0 | 1000 | 5.7e+02 | 5.7e+02 |
| Oxidative Phosphorylation | NAD(P) transhydrogenase (periplasm) | THD2pp | nadh_c + nadp_c + 2 h_p ⇋ nad_c + nadph_c + 2 h_c | 0 | 1000 | 5.3e+02 | 5.3e+02 |
| Glycolysis/Gluconeogenesis | glyceraldehyde-3-phosphate dehydrogenase | GAPD | nadh_c + h_c + 13dpg_c ⇋ g3p_c + pi_c + nad_c | -1000 | 1000 | 71 | 71 |
| Cofactor and Prosthetic Group Biosynthesis | FAD reductase | FADRx | nadh_c + fad_c + h_c ⇋ nad_c + fadh2_c | 0 | 1000 | 11 | 11 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxodecanoyl-CoA) | HACD4 | nadh_c + h_c + 3odcoa_c ⇋ 3hdcoa_c + nad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxododecanoyl-CoA) | HACD5 | 3oddcoa_c + h_c + nadh_c ⇋ nad_c + 3hddcoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (acetoacetyl-CoA) | HACD1 | nadh_c + aacoa_c + h_c ⇋ 3hbcoa_c + nad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexanoyl-CoA) | HACD2 | nadh_c + 3ohcoa_c + h_c ⇋ nad_c + 3hhcoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxooctanoyl-CoA) | HACD3 | nadh_c + h_c + 3oocoa_c ⇋ nad_c + 3hocoa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxotetradecanoyl-CoA) | HACD6 | 3otdcoa_c + nadh_c + h_c ⇋ nad_c + 3htdcoa_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexadecanoyl-CoA) | HACD7 | nadh_c + 3ohdcoa_c + h_c ⇋ 3hhdcoa_c + nad_c | -1000 | 1000 | 1.4 | 1.4 |
| Folate Metabolism | 5,10-methylenetetrahydrofolate reductase (NADH) | MTHFR2 | nadh_c + mlthf_c + 2 h_c ⇋ nad_c + 5mthf_c | 0 | 1000 | 0.76 | 0.76 |
| Cofactor and Prosthetic Group Biosynthesis | NAD synthase (nh3) | NADS1 | nh4_c + dnad_c + atp_c ⇋ h_c + nad_c + ppi_c + amp_c | 0 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (ipdp) | IPDPS | nadh_c + h_c + h2mb4p_c ⇋ ipdp_c + nad_c + h2o_c | 0 | 1000 | 0.01 | 0.01 |
| Cofactor and Prosthetic Group Biosynthesis | MoaD sulfuration (nadh, assumed) | MOADSUx | nadh_c + iscssh_c + moadamp_c ⇋ amp_c + nad_c + iscs_c + moadcosh_c | 0 | 1000 | 0.0024 | 0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (dmpp) | DMPPS | h_c + h2mb4p_c + nadh_c ⇋ dmpp_c + nad_c + h2o_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | Erythronate 4-phosphate (4per) dehydrogenase | PERD | nad_c + 4per_c ⇋ nadh_c + h_c + ohpb_c | -1000 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin dehydrogenase (NAD) | SHCHD2 | dscl_c + nad_c ⇋ nadh_c + scl_c + h_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Erythrose 4-phosphate dehydrogenase | E4PD | nad_c + h2o_c + e4p_c ⇋ nadh_c + 4per_c + 2 h_c | -1000 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-2-methyl-5-phosphomethylpyrimidine synthetase | AMPMS2 | nad_c + air_c + h2o_c ⇋ 4ampm_c + 2 for_c + 3 h_c + nadh_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | NAD kinase | NADK | nad_c + atp_c ⇋ nadp_c + adp_c + h_c | 0 | 1000 | 0.0022 | -0.0022 |
| Folate Metabolism | Glycolaldehyde dehydrogenase | GCALDD | nad_c + h2o_c + gcald_c ⇋ nadh_c + glyclt_c + 2 h_c | 0 | 1000 | 0.0033 | -0.0033 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.009 | |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydrogenase | PPND | nad_c + pphn_c ⇋ nadh_c + co2_c + 34hpp_c | 0 | 1000 | 0.68 | -0.68 |
| Histidine Metabolism | histidinol dehydrogenase | HISTD | histd_c + 2 nad_c + h2o_c ⇋ 2 nadh_c + his_L_c + 3 h_c | 0 | 1000 | 0.47 | -0.93 |
| Purine and Pyrimidine Biosynthesis | IMP dehydrogenase | IMPD | nad_c + h2o_c + imp_c ⇋ nadh_c + h_c + xmp_c | 0 | 1000 | 1.2 | -1.2 |
| Valine, Leucine, and Isoleucine Metabolism | 3-isopropylmalate dehydrogenase | IPMD | nad_c + 3c2hmp_c ⇋ nadh_c + h_c + 3c4mop_c | 0 | 1000 | 2.2 | -2.2 |
| Citric Acid Cycle | malate dehydrogenase | MDH | nad_c + mal_L_c ⇋ nadh_c + h_c + oaa_c | -1000 | 1000 | 5.1 | -5.1 |
| Folate Metabolism | Glycine Cleavage System | GLYCL | gly_c + nad_c + thf_c ⇋ mlthf_c + nadh_c + co2_c + nh4_c | 0 | 1000 | 63 | -63 |
| Glycine and Serine Metabolism | L-threonine dehydrogenase | THRD | nad_c + thr_L_c ⇋ nadh_c + h_c + 2aobut_c | 0 | 1000 | 1.3e+02 | -1.3e+02 |
| free_e | RED | nad_c ⇋ nadh_c | 0 | 1000 | 1e+03 | -1e+03 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| free_e | RED | nad_c ⇋ nadh_c | 0 | 1000 | 1e+03 | 1e+03 | |
| Glycine and Serine Metabolism | L-threonine dehydrogenase | THRD | nad_c + thr_L_c ⇋ nadh_c + h_c + 2aobut_c | 0 | 1000 | 1.3e+02 | 1.3e+02 |
| Folate Metabolism | Glycine Cleavage System | GLYCL | gly_c + nad_c + thf_c ⇋ mlthf_c + nadh_c + co2_c + nh4_c | 0 | 1000 | 63 | 63 |
| Citric Acid Cycle | malate dehydrogenase | MDH | nad_c + mal_L_c ⇋ nadh_c + h_c + oaa_c | -1000 | 1000 | 5.1 | 5.1 |
| Valine, Leucine, and Isoleucine Metabolism | 3-isopropylmalate dehydrogenase | IPMD | nad_c + 3c2hmp_c ⇋ nadh_c + h_c + 3c4mop_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | IMP dehydrogenase | IMPD | nad_c + h2o_c + imp_c ⇋ nadh_c + h_c + xmp_c | 0 | 1000 | 1.2 | 1.2 |
| Histidine Metabolism | histidinol dehydrogenase | HISTD | histd_c + 2 nad_c + h2o_c ⇋ 2 nadh_c + his_L_c + 3 h_c | 0 | 1000 | 0.47 | 0.93 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydrogenase | PPND | nad_c + pphn_c ⇋ nadh_c + co2_c + 34hpp_c | 0 | 1000 | 0.68 | 0.68 |
| Folate Metabolism | Glycolaldehyde dehydrogenase | GCALDD | nad_c + h2o_c + gcald_c ⇋ nadh_c + glyclt_c + 2 h_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Erythronate 4-phosphate (4per) dehydrogenase | PERD | nad_c + 4per_c ⇋ nadh_c + h_c + ohpb_c | -1000 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin dehydrogenase (NAD) | SHCHD2 | dscl_c + nad_c ⇋ nadh_c + scl_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Erythrose 4-phosphate dehydrogenase | E4PD | nad_c + h2o_c + e4p_c ⇋ nadh_c + 4per_c + 2 h_c | -1000 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 4-amino-2-methyl-5-phosphomethylpyrimidine synthetase | AMPMS2 | nad_c + air_c + h2o_c ⇋ 4ampm_c + 2 for_c + 3 h_c + nadh_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (dmpp) | DMPPS | h_c + h2mb4p_c + nadh_c ⇋ dmpp_c + nad_c + h2o_c | 0 | 1000 | 0.0014 | -0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | MoaD sulfuration (nadh, assumed) | MOADSUx | nadh_c + iscssh_c + moadamp_c ⇋ amp_c + nad_c + iscs_c + moadcosh_c | 0 | 1000 | 0.0024 | -0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase (ipdp) | IPDPS | nadh_c + h_c + h2mb4p_c ⇋ ipdp_c + nad_c + h2o_c | 0 | 1000 | 0.01 | -0.01 |
| Folate Metabolism | 5,10-methylenetetrahydrofolate reductase (NADH) | MTHFR2 | nadh_c + mlthf_c + 2 h_c ⇋ nad_c + 5mthf_c | 0 | 1000 | 0.76 | -0.76 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxotetradecanoyl-CoA) | HACD6 | 3otdcoa_c + nadh_c + h_c ⇋ nad_c + 3htdcoa_c | -1000 | 1000 | 1.4 | -1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexadecanoyl-CoA) | HACD7 | nadh_c + 3ohdcoa_c + h_c ⇋ 3hhdcoa_c + nad_c | -1000 | 1000 | 1.4 | -1.4 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxodecanoyl-CoA) | HACD4 | nadh_c + h_c + 3odcoa_c ⇋ 3hdcoa_c + nad_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxododecanoyl-CoA) | HACD5 | 3oddcoa_c + h_c + nadh_c ⇋ nad_c + 3hddcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (acetoacetyl-CoA) | HACD1 | nadh_c + aacoa_c + h_c ⇋ 3hbcoa_c + nad_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxohexanoyl-CoA) | HACD2 | nadh_c + 3ohcoa_c + h_c ⇋ nad_c + 3hhcoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydrogenase (3-oxooctanoyl-CoA) | HACD3 | nadh_c + h_c + 3oocoa_c ⇋ nad_c + 3hocoa_c | -1000 | 1000 | 1.8 | -1.8 |
| Cofactor and Prosthetic Group Biosynthesis | FAD reductase | FADRx | nadh_c + fad_c + h_c ⇋ nad_c + fadh2_c | 0 | 1000 | 11 | -11 |
| Glycolysis/Gluconeogenesis | glyceraldehyde-3-phosphate dehydrogenase | GAPD | nadh_c + h_c + 13dpg_c ⇋ g3p_c + pi_c + nad_c | -1000 | 1000 | 71 | -71 |
| Oxidative Phosphorylation | NAD(P) transhydrogenase (periplasm) | THD2pp | nadh_c + nadp_c + 2 h_p ⇋ nad_c + nadph_c + 2 h_c | 0 | 1000 | 5.3e+02 | -5.3e+02 |
| Oxidative Phosphorylation | NADH dehydrogenase (ubiquinone-8 & 3 protons) (periplasm) | NADH16pp | nadh_c + 4 h_c + q8_c ⇋ nad_c + 3 h_p + q8h2_c | 0 | 1000 | 5.7e+02 | -5.7e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glutamate Metabolism | glutamate dehydrogenase (NADP) | GLUDy | h_c + akg_c + nadph_c + nh4_c ⇋ nadp_c + h2o_c + glu_L_c | -1000 | 1000 | 1.6e+02 | 1.6e+02 |
| Threonine and Lysine Metabolism | aspartate-semialdehyde dehydrogenase | ASAD | h_c + nadph_c + 4pasp_c ⇋ aspsa_c + nadp_c + pi_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Threonine and Lysine Metabolism | homoserine dehydrogenase (NADPH) | HSDy | aspsa_c + nadph_c + h_c ⇋ hom_L_c + nadp_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Unassigned | flavodoxin reductase (NADPH) | FLDR2 | 2 flxso_c + nadph_c ⇋ h_c + nadp_c + 2 flxr_c | 0 | 1000 | 1e+02 | 1e+02 |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2,3-dihydroxy-3-methylbutanoate) | KARA1 | h_c + alac_S_c + nadph_c ⇋ 23dhmb_c + nadp_c | -1000 | 1000 | 4.3 | 4.3 |
| Cysteine Metabolism | sulfite reductase (NADPH2) | SULRi | 5 h_c + so3_c + 3 nadph_c ⇋ h2s_c + 3 h2o_c + 3 nadp_c | 0 | 1000 | 1.2 | 3.7 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate dehydrogenase | SHK3Dr | h_c + 3dhsk_c + nadph_c ⇋ skm_c + nadp_c | -1000 | 1000 | 1.9 | 1.9 |
| Threonine and Lysine Metabolism | dihydrodipicolinate reductase (NADPH) | DHDPRy | 23dhdp_c + h_c + nadph_c ⇋ nadp_c + thdp_c | 0 | 1000 | 1.8 | 1.8 |
| Arginine and Proline Metabolism | N-acetyl-g-glutamyl-phosphate reductase | AGPR | acg5p_c + h_c + nadph_c ⇋ nadp_c + acg5sa_c + pi_c | -1000 | 1000 | 1.5 | 1.5 |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2-Acetolactate) | KARA2 | 2ahbut_c + h_c + nadph_c ⇋ 23dhmp_c + nadp_c | -1000 | 1000 | 1.4 | 1.4 |
| Oxidative Phosphorylation | thioredoxin reductase (NADPH) | TRDR | h_c + trdox_c + nadph_c ⇋ nadp_c + trdrd_c | 0 | 1000 | 1.4 | 1.4 |
| Arginine and Proline Metabolism | pyrroline-5-carboxylate reductase | P5CR | 1pyr5c_c + 2 h_c + nadph_c ⇋ nadp_c + pro_L_c | 0 | 1000 | 1.1 | 1.1 |
| Arginine and Proline Metabolism | glutamate-5-semialdehyde dehydrogenase | G5SD | glu5p_c + h_c + nadph_c ⇋ glu5sa_c + nadp_c + pi_c | 0 | 1000 | 1.1 | 1.1 |
| Alternate Carbon Metabolism | glycerol-3-phosphate dehydrogenase (NADP) | G3PD2 | h_c + nadph_c + dhap_c ⇋ glyc3p_c + nadp_c | -1000 | 1000 | 0.69 | 0.69 |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] reductase (n-C14:0) | 3OAR140 | 3omrsACP_c + h_c + nadph_c ⇋ nadp_c + 3hmrsACP_c | -1000 | 1000 | 0.38 | 0.38 |
| Cell Envelope Biosynthesis | UDP-N-acetylenolpyruvoylglucosamine reductase | UAPGR | nadph_c + h_c + uaccg_c ⇋ nadp_c + uamr_c | 0 | 1000 | 0.14 | 0.14 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate reductase | DHFR | h_c + dhf_c + nadph_c ⇋ nadp_c + thf_c | -1000 | 1000 | 0.13 | 0.13 |
| Cofactor and Prosthetic Group Biosynthesis | glutamyl-tRNA reductase | GLUTRR | glutrna_c + h_c + nadph_c ⇋ glu1sa_c + nadp_c + trnaglu_c | 0 | 1000 | 0.018 | 0.018 |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose reductoisomerase | DXPRIi | dxyl5p_c + h_c + nadph_c ⇋ 2me4p_c + nadp_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | 2-dehydropantoate 2-reductase | DPR | 2dhp_c + h_c + nadph_c ⇋ pant_R_c + nadp_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | NAD kinase | NADK | nad_c + atp_c ⇋ nadp_c + adp_c + h_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | 5-amino-6-(5-phosphoribosylamino)uracil reductase | APRAUR | nadph_c + h_c + 5apru_c ⇋ nadp_c + 5aprbu_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester reductase | OPMEACPR | h_c + nadph_c + opmeACP_c ⇋ nadp_c + hpmeACP_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester reductase | OGMEACPR | ogmeACP_c + h_c + nadph_c ⇋ hgmeACP_c + nadp_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Enoylglutaryl-[ACP] methyl ester reductase | EGMEACPR | egmeACP_c + h_c + nadph_c ⇋ nadp_c + gmeACP_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Enoylpimeloyl-[ACP] methyl ester reductase | EPMEACPR | h_c + epmeACP_c + nadph_c ⇋ nadp_c + pmeACP_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0022 | |
| Folate Metabolism | methylenetetrahydrofolate dehydrogenase (NADP) | MTHFD | nadp_c + mlthf_c ⇋ nadph_c + methf_c | -1000 | 1000 | 4.9 | -4.9 |
| Citric Acid Cycle | isocitrate dehydrogenase (NADP) | ICDHyr | nadp_c + icit_c ⇋ akg_c + nadph_c + co2_c | -1000 | 1000 | 5.3 | -5.3 |
| Oxidative Phosphorylation | NAD(P) transhydrogenase (periplasm) | THD2pp | nadh_c + nadp_c + 2 h_p ⇋ nad_c + nadph_c + 2 h_c | 0 | 1000 | 5.3e+02 | -5.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | NAD(P) transhydrogenase (periplasm) | THD2pp | nadh_c + nadp_c + 2 h_p ⇋ nad_c + nadph_c + 2 h_c | 0 | 1000 | 5.3e+02 | 5.3e+02 |
| Citric Acid Cycle | isocitrate dehydrogenase (NADP) | ICDHyr | nadp_c + icit_c ⇋ akg_c + nadph_c + co2_c | -1000 | 1000 | 5.3 | 5.3 |
| Folate Metabolism | methylenetetrahydrofolate dehydrogenase (NADP) | MTHFD | nadp_c + mlthf_c ⇋ nadph_c + methf_c | -1000 | 1000 | 4.9 | 4.9 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester reductase | OPMEACPR | h_c + nadph_c + opmeACP_c ⇋ nadp_c + hpmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester reductase | OGMEACPR | ogmeACP_c + h_c + nadph_c ⇋ hgmeACP_c + nadp_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Enoylglutaryl-[ACP] methyl ester reductase | EGMEACPR | egmeACP_c + h_c + nadph_c ⇋ nadp_c + gmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Enoylpimeloyl-[ACP] methyl ester reductase | EPMEACPR | h_c + epmeACP_c + nadph_c ⇋ nadp_c + pmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 5-amino-6-(5-phosphoribosylamino)uracil reductase | APRAUR | nadph_c + h_c + 5apru_c ⇋ nadp_c + 5aprbu_c | 0 | 1000 | 0.0022 | -0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | 2-dehydropantoate 2-reductase | DPR | 2dhp_c + h_c + nadph_c ⇋ pant_R_c + nadp_c | 0 | 1000 | 0.0028 | -0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose reductoisomerase | DXPRIi | dxyl5p_c + h_c + nadph_c ⇋ 2me4p_c + nadp_c | 0 | 1000 | 0.012 | -0.012 |
| Cofactor and Prosthetic Group Biosynthesis | glutamyl-tRNA reductase | GLUTRR | glutrna_c + h_c + nadph_c ⇋ glu1sa_c + nadp_c + trnaglu_c | 0 | 1000 | 0.018 | -0.018 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate reductase | DHFR | h_c + dhf_c + nadph_c ⇋ nadp_c + thf_c | -1000 | 1000 | 0.13 | -0.13 |
| Cell Envelope Biosynthesis | UDP-N-acetylenolpyruvoylglucosamine reductase | UAPGR | nadph_c + h_c + uaccg_c ⇋ nadp_c + uamr_c | 0 | 1000 | 0.14 | -0.14 |
| Cell Envelope Biosynthesis | 3-oxoacyl-[acyl-carrier-protein] reductase (n-C14:0) | 3OAR140 | 3omrsACP_c + h_c + nadph_c ⇋ nadp_c + 3hmrsACP_c | -1000 | 1000 | 0.38 | -0.38 |
| Alternate Carbon Metabolism | glycerol-3-phosphate dehydrogenase (NADP) | G3PD2 | h_c + nadph_c + dhap_c ⇋ glyc3p_c + nadp_c | -1000 | 1000 | 0.69 | -0.69 |
| Arginine and Proline Metabolism | pyrroline-5-carboxylate reductase | P5CR | 1pyr5c_c + 2 h_c + nadph_c ⇋ nadp_c + pro_L_c | 0 | 1000 | 1.1 | -1.1 |
| Arginine and Proline Metabolism | glutamate-5-semialdehyde dehydrogenase | G5SD | glu5p_c + h_c + nadph_c ⇋ glu5sa_c + nadp_c + pi_c | 0 | 1000 | 1.1 | -1.1 |
| Oxidative Phosphorylation | thioredoxin reductase (NADPH) | TRDR | h_c + trdox_c + nadph_c ⇋ nadp_c + trdrd_c | 0 | 1000 | 1.4 | -1.4 |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2-Acetolactate) | KARA2 | 2ahbut_c + h_c + nadph_c ⇋ 23dhmp_c + nadp_c | -1000 | 1000 | 1.4 | -1.4 |
| Arginine and Proline Metabolism | N-acetyl-g-glutamyl-phosphate reductase | AGPR | acg5p_c + h_c + nadph_c ⇋ nadp_c + acg5sa_c + pi_c | -1000 | 1000 | 1.5 | -1.5 |
| Threonine and Lysine Metabolism | dihydrodipicolinate reductase (NADPH) | DHDPRy | 23dhdp_c + h_c + nadph_c ⇋ nadp_c + thdp_c | 0 | 1000 | 1.8 | -1.8 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate dehydrogenase | SHK3Dr | h_c + 3dhsk_c + nadph_c ⇋ skm_c + nadp_c | -1000 | 1000 | 1.9 | -1.9 |
| Cysteine Metabolism | sulfite reductase (NADPH2) | SULRi | 5 h_c + so3_c + 3 nadph_c ⇋ h2s_c + 3 h2o_c + 3 nadp_c | 0 | 1000 | 1.2 | -3.7 |
| Valine, Leucine, and Isoleucine Metabolism | ketol-acid reductoisomerase (2,3-dihydroxy-3-methylbutanoate) | KARA1 | h_c + alac_S_c + nadph_c ⇋ 23dhmb_c + nadp_c | -1000 | 1000 | 4.3 | -4.3 |
| Unassigned | flavodoxin reductase (NADPH) | FLDR2 | 2 flxso_c + nadph_c ⇋ h_c + nadp_c + 2 flxr_c | 0 | 1000 | 1e+02 | -1e+02 |
| Threonine and Lysine Metabolism | homoserine dehydrogenase (NADPH) | HSDy | aspsa_c + nadph_c + h_c ⇋ hom_L_c + nadp_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Threonine and Lysine Metabolism | aspartate-semialdehyde dehydrogenase | ASAD | h_c + nadph_c + 4pasp_c ⇋ aspsa_c + nadp_c + pi_c | -1000 | 1000 | 1.3e+02 | -1.3e+02 |
| Glutamate Metabolism | glutamate dehydrogenase (NADP) | GLUDy | h_c + akg_c + nadph_c + nh4_c ⇋ nadp_c + h2o_c + glu_L_c | -1000 | 1000 | 1.6e+02 | -1.6e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Folate Metabolism | Glycine Cleavage System | GLYCL | gly_c + nad_c + thf_c ⇋ mlthf_c + nadh_c + co2_c + nh4_c | 0 | 1000 | 63 | 63 |
| Glycine and Serine Metabolism | L-serine deaminase | SERD_L | ser_L_c ⇋ pyr_c + nh4_c | 0 | 1000 | 54 | 54 |
| Inorganic Ion Transport and Metabolism | ammonia reversible transport (periplasm) | NH4tpp | nh4_p ⇋ nh4_c | -1000 | 1000 | 53 | 53 |
| Valine, Leucine, and Isoleucine Metabolism | L-threonine deaminase | THRD_L | thr_L_c ⇋ 2obut_c + nh4_c | 0 | 1000 | 1.4 | 1.4 |
| Methionine Metabolism | cystathionine b-lyase | CYSTL | cyst_L_c + h2o_c ⇋ pyr_c + hcys_L_c + nh4_c | 0 | 1000 | 0.76 | 0.76 |
| Cofactor and Prosthetic Group Biosynthesis | hydroxymethylbilane synthase | HMBS | h2o_c + 4 ppbng_c ⇋ hmbil_c + 4 nh4_c | 0 | 1000 | 0.0022 | 0.0088 |
| Cofactor and Prosthetic Group Biosynthesis | diaminohydroxyphosphoribosylaminopryrimidine deaminase (25drapp) | DHPPDA2 | h_c + 25drapp_c + h2o_c ⇋ 5apru_c + nh4_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | NAD synthase (nh3) | NADS1 | nh4_c + dnad_c + atp_c ⇋ h_c + nad_c + ppi_c + amp_c | 0 | 1000 | 0.011 | -0.011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.064 | |
| Alanine and Aspartate Metabolism | asparagine synthetase | ASNS2 | nh4_c + asp_L_c + atp_c ⇋ ppi_c + h_c + asn_L_c + amp_c | 0 | 1000 | 1.2 | -1.2 |
| Unassigned | Carbamate kinase | CBMKr | nh4_c + co2_c + atp_c ⇋ cbp_c + 2 h_c + adp_c | -1000 | 1000 | 3.1 | -3.1 |
| Glutamate Metabolism | glutamine synthetase | GLNS | atp_c + glu_L_c + nh4_c ⇋ h_c + adp_c + pi_c + gln_L_c | 0 | 1000 | 8.9 | -8.9 |
| Glutamate Metabolism | glutamate dehydrogenase (NADP) | GLUDy | h_c + akg_c + nadph_c + nh4_c ⇋ nadp_c + h2o_c + glu_L_c | -1000 | 1000 | 1.6e+02 | -1.6e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | nickel (+2) transport in via permease (no H+) | NI2tpp | ni2_p ⇋ ni2_c | 0 | 1000 | 0.0016 | 0.0016 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0016 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | nicotinate-nucleotide diphosphorylase (carboxylating) | NNDPR | quln_c + 2 h_c + prpp_c ⇋ nicrnt_c + ppi_c + co2_c | 0 | 1000 | 0.011 | 0.011 |
| Nucleotide Salvage Pathway | nicotinate-nucleotide adenylyltransferase | NNATr | nicrnt_c + h_c + atp_c ⇋ ppi_c + dnad_c | -1000 | 1000 | 0.011 | -0.011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | o2 transport via diffusion (periplasm) | O2tpp | o2_p ⇋ o2_c | -1000 | 1000 | 2.9e+02 | 2.9e+02 |
| Cofactor and Prosthetic Group Biosynthesis | 2-Octaprenylphenol hydroxylase | OPHHX | 0.5 o2_c + 2oph_c ⇋ 2ohph_c | 0 | 1000 | 0.0011 | -0.00055 |
| Cofactor and Prosthetic Group Biosynthesis | pyridoxine 5'-phosphate oxidase | PDX5POi | pdx5p_c + o2_c ⇋ h2o2_c + pydx5p_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | coproporphyrinogen oxidase (O2 required) | CPPPGO | o2_c + 2 h_c + cpppg3_c ⇋ pppg9_c + 2 co2_c + 2 h2o_c | 0 | 1000 | 0.0011 | -0.0011 |
| Citric Acid Cycle | malate oxidase | MOX | o2_c + mal_L_c ⇋ h2o2_c + oaa_c | -1000 | 1000 | 0.0069 | -0.0069 |
| Cofactor and Prosthetic Group Biosynthesis | L-aspartate oxidase | ASPO6 | o2_c + asp_L_c ⇋ h_c + iasp_c + h2o2_c | 0 | 1000 | 0.011 | -0.011 |
| Oxidative Phosphorylation | cytochrome oxidase bo3 (ubiquinol-8: 4 protons) (periplasm) | CYTBO3_4pp | 0.5 o2_c + q8h2_c + 4 h_c ⇋ h2o_c + q8_c + 4 h_p | 0 | 1000 | 5.7e+02 | -2.9e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Anaplerotic Reactions | phosphoenolpyruvate carboxylase | PPC | h2o_c + co2_c + pep_c ⇋ h_c + pi_c + oaa_c | 0 | 1000 | 1.4e+02 | 1.4e+02 |
| Citric Acid Cycle | malate dehydrogenase | MDH | nad_c + mal_L_c ⇋ nadh_c + h_c + oaa_c | -1000 | 1000 | 5.1 | 5.1 |
| Citric Acid Cycle | malate oxidase | MOX | o2_c + mal_L_c ⇋ h2o2_c + oaa_c | -1000 | 1000 | 0.0069 | 0.0069 |
| Citric Acid Cycle | citrate synthase | CS | h2o_c + oaa_c + accoa_c ⇋ coa_c + cit_c + h_c | 0 | 1000 | 5.3 | -5.3 |
| Alanine and Aspartate Metabolism | aspartate transaminase | ASPTA | glu_L_c + oaa_c ⇋ akg_c + asp_L_c | -1000 | 1000 | 1.4e+02 | -1.4e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxyoctanoyl-CoA) | ECOAH3 | 3hocoa_c ⇋ h2o_c + oc2coa_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (octanoyl-CoA) | ACOAD3f | fadh2_c + oc2coa_c ⇋ occoa_c + fad_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (octanoyl-CoA) | ACOAD3f | fadh2_c + oc2coa_c ⇋ occoa_c + fad_c | -1000 | 1000 | 1.8 | 1.8 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (octanoyl-CoA) (r) | ACACT4r | occoa_c + accoa_c ⇋ 3odcoa_c + coa_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Octaprenyl pyrophosphate synthase | OCTDPS | 5 ipdp_c + frdp_c ⇋ octdp_c + 5 ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Hydroxybenzoate octaprenyltransferase | HBZOPT | 4hbz_c + octdp_c ⇋ 3ophb_c + ppi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester synthase | OGMEACPS | h_c + malACP_c + malcoame_c ⇋ ogmeACP_c + co2_c + coa_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-glutaryl-[ACP] methyl ester reductase | OGMEACPR | ogmeACP_c + h_c + nadph_c ⇋ hgmeACP_c + nadp_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Erythronate 4-phosphate (4per) dehydrogenase | PERD | nad_c + 4per_c ⇋ nadh_c + h_c + ohpb_c | -1000 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | O-Phospho-4-hydroxy-L-threonine:2-oxoglutarate aminotransferase | OHPBAT | glu_L_c + ohpb_c ⇋ akg_c + phthr_c | -1000 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester synthase | OPMEACPS | gmeACP_c + h_c + malACP_c ⇋ ACP_c + opmeACP_c + co2_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 3-Oxo-pimeloyl-[ACP] methyl ester reductase | OPMEACPR | h_c + nadph_c + opmeACP_c ⇋ nadp_c + hpmeACP_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | acetylornithine deacetylase | ACODA | acorn_c + h2o_c ⇋ ac_c + orn_c | 0 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | ornithine carbamoyltransferase | OCBT | cbp_c + orn_c ⇋ citr_L_c + h_c + pi_c | -1000 | 1000 | 1.5 | -1.5 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | dihydoorotic acid dehydrogenase (quinone8) | DHORD2 | q8_c + dhor_S_c ⇋ orot_c + q8h2_c | 0 | 1000 | 1.6 | 1.6 |
| Purine and Pyrimidine Biosynthesis | orotate phosphoribosyltransferase | ORPT | orot_c + prpp_c ⇋ orot5p_c + ppi_c | -1000 | 1000 | 1.6 | -1.6 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | orotate phosphoribosyltransferase | ORPT | orot_c + prpp_c ⇋ orot5p_c + ppi_c | -1000 | 1000 | 1.6 | 1.6 |
| Purine and Pyrimidine Biosynthesis | orotidine-5'-phosphate decarboxylase | OMPDC | h_c + orot5p_c ⇋ co2_c + ump_c | 0 | 1000 | 1.6 | -1.6 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | 1-hexadecanoyl-sn-glycerol 3-phosphate O-acyltransferase (n-C16:0) | AGPAT160 | palmACP_c + 1hdecg3p_c ⇋ ACP_c + pa160_c | 0 | 1000 | 0.31 | 0.31 |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:0) | DASYN160 | pa160_c + ctp_c + h_c ⇋ ppi_c + cdpdhdecg_c | 0 | 1000 | 0.31 | -0.31 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | 1-hexadec-7-enoyl-sn-glycerol 3-phosphate O-acyltransferase (n-C16:1) | AGPAT161 | hdeACP_c + 1hdec9eg3p_c ⇋ ACP_c + pa161_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:1) | DASYN161 | pa161_c + ctp_c + h_c ⇋ ppi_c + cdpdhdec9eg_c | 0 | 1000 | 0.37 | -0.37 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:0) | AACPS3 | ACP_c + atp_c + hdca_c ⇋ ppi_c + palmACP_c + amp_c | 0 | 1000 | 0.63 | 0.63 |
| Glycerophospholipid Metabolism | 1-hexadecanoyl-sn-glycerol 3-phosphate O-acyltransferase (n-C16:0) | AGPAT160 | palmACP_c + 1hdecg3p_c ⇋ ACP_c + pa160_c | 0 | 1000 | 0.31 | -0.31 |
| Glycerophospholipid Metabolism | glycerol-3-phosphate acyltransferase (C16:0) | G3PAT160 | palmACP_c + glyc3p_c ⇋ ACP_c + 1hdecg3p_c | 0 | 1000 | 0.31 | -0.31 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenoylcysteine decarboxylase | PPCDC | 4ppcys_c + h_c ⇋ co2_c + pan4p_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantetheine-phosphate adenylyltransferase | PTPATi | h_c + atp_c + pan4p_c ⇋ ppi_c + dpcoa_c | 0 | 1000 | 0.0028 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | 2-dehydropantoate 2-reductase | DPR | 2dhp_c + h_c + nadph_c ⇋ pant_R_c + nadp_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate synthase | PANTS | pant_R_c + atp_c + ala_B_c ⇋ pnto_R_c + h_c + amp_c + ppi_c | 0 | 1000 | 0.0028 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cysteine Metabolism | phosphoadenylyl-sulfate reductase (thioredoxin) | PAPSR | paps_c + trdrd_c ⇋ 2 h_c + so3_c + pap_c + trdox_c | 0 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | 3',5'-bisphosphate nucleotidase | BPNT | pap_c + h2o_c ⇋ amp_c + pi_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cysteine Metabolism | adenylyl-sulfate kinase | ADSK | atp_c + aps_c ⇋ paps_c + adp_c + h_c | 0 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | phosphoadenylyl-sulfate reductase (thioredoxin) | PAPSR | paps_c + trdrd_c ⇋ 2 h_c + so3_c + pap_c + trdox_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | pyridoxine 5'-phosphate oxidase | PDX5POi | pdx5p_c + o2_c ⇋ h2o2_c + pydx5p_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | Phosphatidylserine decarboxylase (n-C16:0) | PSD160 | h_c + ps160_c ⇋ pe160_c + co2_c | 0 | 1000 | 0.31 | 0.31 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.088 | |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:0, periplasm) | PE160abcpp | h2o_c + pe160_c + atp_c ⇋ pe160_p + adp_c + h_c + pi_c | 0 | 1000 | 0.23 | -0.23 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | Phosphatidylserine decarboxylase (n-C16:1) | PSD161 | ps161_c + h_c ⇋ co2_c + pe161_c | 0 | 1000 | 0.37 | 0.37 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:1, periplasm) | PE161abcpp | h2o_c + pe161_c + atp_c ⇋ adp_c + h_c + pi_c + pe161_p | 0 | 1000 | 0.1 | -0.1 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.27 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycolysis/Gluconeogenesis | phosphoenolpyruvate synthase | PPS | pyr_c + h2o_c + atp_c ⇋ amp_c + pep_c + 2 h_c + pi_c | 0 | 1000 | 1.4e+02 | 1.4e+02 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | UAGCVT | uacgam_c + pep_c ⇋ pi_c + uaccg_c | 0 | 1000 | 0.14 | -0.14 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy -D-manno-octulosonic -acid 8-phosphate synthase | KDOPS | ara5p_c + pep_c + h2o_c ⇋ kdo8p_c + pi_c | 0 | 1000 | 0.19 | -0.19 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase | DDPA | e4p_c + h2o_c + pep_c ⇋ 2dda7p_c + pi_c | 0 | 1000 | 1.9 | -1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-phosphoshikimate 1-carboxyvinyltransferase | PSCVT | skm5p_c + pep_c ⇋ 3psme_c + pi_c | -1000 | 1000 | 1.9 | -1.9 |
| Anaplerotic Reactions | phosphoenolpyruvate carboxylase | PPC | h2o_c + co2_c + pep_c ⇋ h_c + pi_c + oaa_c | 0 | 1000 | 1.4e+02 | -1.4e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | phenylalanine transaminase | PHETA1 | glu_L_c + phpyr_c ⇋ phe_L_c + akg_c | -1000 | 1000 | 0.91 | 0.91 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.91 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Ferrochelatase | FCLT | ppp9_c + fe2_c ⇋ 2 h_c + pheme_c | 0 | 1000 | 0.0011 | 0.0011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | homoserine kinase | HSK | hom_L_c + atp_c ⇋ phom_c + adp_c + h_c | 0 | 1000 | 1.3e+02 | 1.3e+02 |
| Threonine and Lysine Metabolism | threonine synthase | THRS | h2o_c + phom_c ⇋ pi_c + thr_L_c | 0 | 1000 | 1.3e+02 | -1.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydratase | PPNDH | h_c + pphn_c ⇋ phpyr_c + co2_c + h2o_c | 0 | 1000 | 0.91 | 0.91 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | phenylalanine transaminase | PHETA1 | glu_L_c + phpyr_c ⇋ phe_L_c + akg_c | -1000 | 1000 | 0.91 | -0.91 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | O-Phospho-4-hydroxy-L-threonine:2-oxoglutarate aminotransferase | OHPBAT | glu_L_c + ohpb_c ⇋ akg_c + phthr_c | -1000 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | 2.7e+02 | |
| Glycolysis/Gluconeogenesis | phosphoenolpyruvate synthase | PPS | pyr_c + h2o_c + atp_c ⇋ amp_c + pep_c + 2 h_c + pi_c | 0 | 1000 | 1.4e+02 | 1.4e+02 |
| Anaplerotic Reactions | phosphoenolpyruvate carboxylase | PPC | h2o_c + co2_c + pep_c ⇋ h_c + pi_c + oaa_c | 0 | 1000 | 1.4e+02 | 1.4e+02 |
| Threonine and Lysine Metabolism | aspartate-semialdehyde dehydrogenase | ASAD | h_c + nadph_c + 4pasp_c ⇋ aspsa_c + nadp_c + pi_c | -1000 | 1000 | 1.3e+02 | 1.3e+02 |
| Threonine and Lysine Metabolism | threonine synthase | THRS | h2o_c + phom_c ⇋ pi_c + thr_L_c | 0 | 1000 | 1.3e+02 | 1.3e+02 |
| Glycolysis/Gluconeogenesis | glyceraldehyde-3-phosphate dehydrogenase | GAPD | nadh_c + h_c + 13dpg_c ⇋ g3p_c + pi_c + nad_c | -1000 | 1000 | 71 | 71 |
| Glycolysis/Gluconeogenesis | fructose-bisphosphatase | FBP | h2o_c + fdp_c ⇋ pi_c + f6p_c | 0 | 1000 | 28 | 28 |
| Oxidative Phosphorylation | polyphosphate kinase | PPKr | ppi_c + adp_c ⇋ atp_c + pi_c | -1000 | 1000 | 17 | 17 |
| Glutamate Metabolism | glutamine synthetase | GLNS | atp_c + glu_L_c + nh4_c ⇋ h_c + adp_c + pi_c + gln_L_c | 0 | 1000 | 8.9 | 8.9 |
| Inorganic Ion Transport and Metabolism | phosphate reversible transport via symport (periplasm) | PIt2rpp | pi_p + h_p ⇋ h_c + pi_c | -1000 | 1000 | 4.8 | 4.8 |
| Pyruvate Metabolism | phosphotransacetylase | PTAr | coa_c + actp_c ⇋ pi_c + accoa_c | -1000 | 1000 | 2.9 | 2.9 |
| Citric Acid Cycle | succinyl-CoA synthetase (ADP-forming) | SUCOAS | coa_c + atp_c + succ_c ⇋ adp_c + pi_c + succoa_c | -1000 | 1000 | 2.6 | 2.6 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylformylglycinamidine synthase | PRFGS | fgam_c + atp_c + gln_L_c + h2o_c ⇋ adp_c + fpram_c + h_c + glu_L_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole synthase | PRAIS | fpram_c + atp_c ⇋ air_c + adp_c + pi_c + 2 h_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide synthase | PRAGSr | gly_c + pram_c + atp_c ⇋ adp_c + h_c + gar_c + pi_c | -1000 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazole carboxylase | AIRC2 | hco3_c + air_c + atp_c ⇋ 5caiz_c + adp_c + h_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolesuccinocarboxamide synthase | PRASCSi | asp_L_c + 5aizc_c + atp_c ⇋ adp_c + 25aics_c + h_c + pi_c | 0 | 1000 | 2.2 | 2.2 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | chorismate synthase | CHORS | 3psme_c ⇋ chor_c + pi_c | 0 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-phosphoshikimate 1-carboxyvinyltransferase | PSCVT | skm5p_c + pep_c ⇋ 3psme_c + pi_c | -1000 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase | DDPA | e4p_c + h2o_c + pep_c ⇋ 2dda7p_c + pi_c | 0 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-dehydroquinate synthase | DHQS | 2dda7p_c ⇋ pi_c + 3dhq_c | 0 | 1000 | 1.9 | 1.9 |
| Purine and Pyrimidine Biosynthesis | aspartate carbamoyltransferase | ASPCT | cbp_c + asp_L_c ⇋ h_c + pi_c + cbasp_c | 0 | 1000 | 1.6 | 1.6 |
| Purine and Pyrimidine Biosynthesis | adenylosuccinate synthase | ADSS | asp_L_c + gtp_c + imp_c ⇋ 2 h_c + dcamp_c + pi_c + gdp_c | 0 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | ornithine carbamoyltransferase | OCBT | cbp_c + orn_c ⇋ citr_L_c + h_c + pi_c | -1000 | 1000 | 1.5 | 1.5 |
| Arginine and Proline Metabolism | N-acetyl-g-glutamyl-phosphate reductase | AGPR | acg5p_c + h_c + nadph_c ⇋ nadp_c + acg5sa_c + pi_c | -1000 | 1000 | 1.5 | 1.5 |
| Cysteine Metabolism | Sulfate adenyltransferase | SADT2 | so4_c + atp_c + h2o_c + gtp_c ⇋ aps_c + ppi_c + pi_c + gdp_c | 0 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | 3',5'-bisphosphate nucleotidase | BPNT | pap_c + h2o_c ⇋ amp_c + pi_c | 0 | 1000 | 1.2 | 1.2 |
| Arginine and Proline Metabolism | glutamate-5-semialdehyde dehydrogenase | G5SD | glu5p_c + h_c + nadph_c ⇋ glu5sa_c + nadp_c + pi_c | 0 | 1000 | 1.1 | 1.1 |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | 0.79 |
| Histidine Metabolism | histidinol-phosphatase | HISTP | hisp_c + h2o_c ⇋ histd_c + pi_c | 0 | 1000 | 0.47 | 0.47 |
| Membrane Lipid Metabolism | acetyl-CoA carboxylase | ACCOAC | hco3_c + atp_c + accoa_c ⇋ adp_c + h_c + malcoa_c + pi_c | 0 | 1000 | 0.38 | 0.38 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:0, periplasm) | PE160abcpp | h2o_c + pe160_c + atp_c ⇋ pe160_p + adp_c + h_c + pi_c | 0 | 1000 | 0.23 | 0.23 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy -D-manno-octulosonic -acid 8-phosphate synthase | KDOPS | ara5p_c + pep_c + h2o_c ⇋ kdo8p_c + pi_c | 0 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-manno-octulosonate-8-phosphatase | KDOPP | h2o_c + kdo8p_c ⇋ kdo_c + pi_c | 0 | 1000 | 0.19 | 0.19 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelate synthetase | UAAGDS | uamag_c + 26dap_M_c + atp_c ⇋ ugmd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase | UAMAGS | uama_c + atp_c + glu_D_c ⇋ uamag_c + h_c + adp_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanine synthetase | UAMAS | uamr_c + ala_L_c + atp_c ⇋ uama_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine synthetase | UGMDDS | ugmd_c + alaala_c + atp_c ⇋ adp_c + h_c + pi_c + ugmda_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | undecaprenyl-diphosphatase | UDCPDP | h2o_c + udcpdp_c ⇋ udcpp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | D-alanine-D-alanine ligase (reversible) | ALAALAr | atp_c + 2 ala_D_c ⇋ adp_c + h_c + pi_c + alaala_c | -1000 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | UAGCVT | uacgam_c + pep_c ⇋ pi_c + uaccg_c | 0 | 1000 | 0.14 | 0.14 |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:1, periplasm) | PE161abcpp | h2o_c + pe161_c + atp_c ⇋ adp_c + h_c + pi_c + pe161_p | 0 | 1000 | 0.1 | 0.1 |
| Transport, Inner Membrane | KDO(2)-lipid IV A transport via ABC system (periplasm) | K2L4Aabcpp | kdo2lipid4_c + atp_c + h2o_c ⇋ h_c + adp_c + kdo2lipid4_p + pi_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | KDO(2)-lipid IV A transport via ABC system (periplasm to extracellular) | K2L4Aabctex | kdo2lipid4_p + h2o_c + atp_c ⇋ kdo2lipid4_e + adp_c + h_c + pi_c | 0 | 1000 | 0.096 | 0.096 |
| Purine and Pyrimidine Biosynthesis | GAR transformylase-T | GART | gar_c + for_c + atp_c ⇋ fgam_c + adp_c + h_c + pi_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | quinolinate synthase | QULNS | dhap_c + iasp_c ⇋ quln_c + pi_c + 2 h2o_c | 0 | 1000 | 0.011 | 0.011 |
| Methionine Metabolism | methionine adenosyltransferase | METAT | met_L_c + atp_c + h2o_c ⇋ amet_c + ppi_c + pi_c | 0 | 1000 | 0.0044 | 0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin synthase | RBFSa | db4p_c + 4r5au_c ⇋ dmlz_c + pi_c + 2 h2o_c | 0 | 1000 | 0.0044 | 0.0044 |
| Nucleotide Salvage Pathway | purine-nucleoside phosphorylase (Adenosine) | PUNP1 | ade_c + r1p_c ⇋ pi_c + adn_c | -1000 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin monophosphate dephosphorylase | DNMPPA | dhpmp_c + h2o_c ⇋ dhnpt_c + pi_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate synthase | DHFS | glu_L_c + atp_c + dhpt_c ⇋ h_c + dhf_c + adp_c + pi_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | pyrimidine phosphatase | PMDPHT | h2o_c + 5aprbu_c ⇋ pi_c + 4r5au_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | Pyridoxine 5'-phosphate synthase | PDX5PS | nad_c + dxyl5p_c + phthr_c ⇋ nadh_c + pdx5p_c + co2_c + h_c + 2 h2o_c + pi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Inorganic Ion Transport and Metabolism | molybdate transport via ABC system (periplasm) | MOBDabcpp | mobd_p + atp_c + h2o_c ⇋ mobd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.00064 | 0.00064 |
| Cofactor and Prosthetic Group Biosynthesis | dethiobiotin synthase | DBTS | dann_c + co2_c + atp_c ⇋ adp_c + 3 h_c + pi_c + dtbt_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Oxidative Phosphorylation | ATP synthase (four protons for one ATP) (periplasm) | ATPS4rpp | adp_c + pi_c + 4 h_p ⇋ 3 h_c + atp_c + h2o_c | -1000 | 1000 | 9.8e+02 | -9.8e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Pimeloyl-[ACP] methyl ester esterase | PMEACPE | h2o_c + pmeACP_c ⇋ pimACP_c + meoh_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | 8-amino-7-oxononanoate synthase | AOXSr2 | pimACP_c + ala_L_c ⇋ ACP_c + co2_c + 8aonn_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | Enoylpimeloyl-[ACP] methyl ester reductase | EPMEACPR | h_c + epmeACP_c + nadph_c ⇋ nadp_c + pmeACP_c | 0 | 1000 | 9.9e-06 | 9.9e-06 |
| Cofactor and Prosthetic Group Biosynthesis | Pimeloyl-[ACP] methyl ester esterase | PMEACPE | h2o_c + pmeACP_c ⇋ pimACP_c + meoh_c | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (hexadecanoyl-CoA) | ACOAD7f | hdd2coa_c + fadh2_c ⇋ pmtcoa_c + fad_c | -1000 | 1000 | 0.63 | 0.63 |
| Cell Envelope Biosynthesis | fatty-acid-CoA thioesterase (hexadecanoate) | FACOAE160 | pmtcoa_c + h2o_c ⇋ coa_c + h_c + hdca_c | 0 | 1000 | 0.63 | -0.63 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate synthase | PANTS | pant_R_c + atp_c + ala_B_c ⇋ pnto_R_c + h_c + amp_c + ppi_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate kinase | PNTK | pnto_R_c + atp_c ⇋ h_c + 4ppan_c + adp_c | 0 | 1000 | 0.0028 | -0.0028 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | porphobilinogen synthase | PPBNGS | 2 5aop_c ⇋ 2 h2o_c + ppbng_c + h_c | 0 | 1000 | 0.0088 | 0.0088 |
| Cofactor and Prosthetic Group Biosynthesis | hydroxymethylbilane synthase | HMBS | h2o_c + 4 ppbng_c ⇋ hmbil_c + 4 nh4_c | 0 | 1000 | 0.0022 | -0.0088 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | chorismate mutase | CHORM | chor_c ⇋ pphn_c | 0 | 1000 | 1.6 | 1.6 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydrogenase | PPND | nad_c + pphn_c ⇋ nadh_c + co2_c + 34hpp_c | 0 | 1000 | 0.68 | -0.68 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | prephenate dehydratase | PPNDH | h_c + pphn_c ⇋ phpyr_c + co2_c + h2o_c | 0 | 1000 | 0.91 | -0.91 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | 3.8 | |
| Purine and Pyrimidine Biosynthesis | glutamine phosphoribosyldiphosphate amidotransferase | GLUPRT | gln_L_c + prpp_c + h2o_c ⇋ ppi_c + glu_L_c + pram_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | orotate phosphoribosyltransferase | ORPT | orot_c + prpp_c ⇋ orot5p_c + ppi_c | -1000 | 1000 | 1.6 | 1.6 |
| Arginine and Proline Metabolism | argininosuccinate synthase | ARGSS | asp_L_c + citr_L_c + atp_c ⇋ amp_c + argsuc_c + h_c + ppi_c | 0 | 1000 | 1.5 | 1.5 |
| Cysteine Metabolism | Sulfate adenyltransferase | SADT2 | so4_c + atp_c + h2o_c + gtp_c ⇋ aps_c + ppi_c + pi_c + gdp_c | 0 | 1000 | 1.2 | 1.2 |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | 1.2 |
| Alanine and Aspartate Metabolism | asparagine synthetase | ASNS2 | nh4_c + asp_L_c + atp_c ⇋ ppi_c + h_c + asn_L_c + amp_c | 0 | 1000 | 1.2 | 1.2 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:1) | AACPS4 | ACP_c + hdcea_c + atp_c ⇋ ppi_c + hdeACP_c + amp_c | 0 | 1000 | 0.74 | 0.74 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C16:0) | AACPS3 | ACP_c + atp_c + hdca_c ⇋ ppi_c + palmACP_c + amp_c | 0 | 1000 | 0.63 | 0.63 |
| Histidine Metabolism | phosphoribosyl-ATP pyrophosphatase | PRATPP | prbatp_c + h2o_c ⇋ ppi_c + prbamp_c + h_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | ATP phosphoribosyltransferase | ATPPRT | atp_c + prpp_c ⇋ prbatp_c + ppi_c | 0 | 1000 | 0.47 | 0.47 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine diphosphorylase | UAGDP | utp_c + h_c + acgam1p_c ⇋ ppi_c + uacgam_c | 0 | 1000 | 0.47 | 0.47 |
| Cell Envelope Biosynthesis | acyl-[acyl-carrier-protein] synthetase (n-C12:0) | AACPS7 | ACP_c + ddca_c + atp_c ⇋ ddcaACP_c + ppi_c + amp_c | 0 | 1000 | 0.38 | 0.38 |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:1) | DASYN161 | pa161_c + ctp_c + h_c ⇋ ppi_c + cdpdhdec9eg_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | CDP-diacylglycerol synthetase (n-C16:0) | DASYN160 | pa160_c + ctp_c + h_c ⇋ ppi_c + cdpdhdecg_c | 0 | 1000 | 0.31 | 0.31 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate phosphoribosyltransferase | ANPRT | prpp_c + anth_c ⇋ ppi_c + pran_c | 0 | 1000 | 0.28 | 0.28 |
| Lipopolysaccharide Biosynthesis / Recycling | 3-deoxy-manno-octulosonate cytidylyltransferase | KDOCT2 | ctp_c + kdo_c ⇋ ckdo_c + ppi_c | 0 | 1000 | 0.19 | 0.19 |
| Nucleotide Salvage Pathway | dUTP diphosphatase | DUTPDP | h2o_c + dutp_c ⇋ ppi_c + dump_c + h_c | 0 | 1000 | 0.13 | 0.13 |
| Cofactor and Prosthetic Group Biosynthesis | Glutamyl-tRNA synthetase | GLUTRS | glu_L_c + atp_c + trnaglu_c ⇋ glutrna_c + amp_c + ppi_c | 0 | 1000 | 0.018 | 0.018 |
| Cofactor and Prosthetic Group Biosynthesis | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase | MEPCT | 2me4p_c + h_c + ctp_c ⇋ 4c2me_c + ppi_c | 0 | 1000 | 0.012 | 0.012 |
| Cofactor and Prosthetic Group Biosynthesis | NAD synthase (nh3) | NADS1 | nh4_c + dnad_c + atp_c ⇋ h_c + nad_c + ppi_c + amp_c | 0 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | nicotinate-nucleotide diphosphorylase (carboxylating) | NNDPR | quln_c + 2 h_c + prpp_c ⇋ nicrnt_c + ppi_c + co2_c | 0 | 1000 | 0.011 | 0.011 |
| Nucleotide Salvage Pathway | nicotinate-nucleotide adenylyltransferase | NNATr | nicrnt_c + h_c + atp_c ⇋ ppi_c + dnad_c | -1000 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | Octaprenyl pyrophosphate synthase | OCTDPS | 5 ipdp_c + frdp_c ⇋ octdp_c + 5 ppi_c | 0 | 1000 | 0.0011 | 0.0055 |
| Methionine Metabolism | methionine adenosyltransferase | METAT | met_L_c + atp_c + h2o_c ⇋ amet_c + ppi_c + pi_c | 0 | 1000 | 0.0044 | 0.0044 |
| Cofactor and Prosthetic Group Biosynthesis | Dihydroneopterin triphosphate pyrophosphatase | DNTPPA | ahdt_c + h2o_c ⇋ ppi_c + dhpmp_c + h_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | dihydropteroate synthase | DHPS2 | 6hmhptpp_c + 4abz_c ⇋ dhpt_c + ppi_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | pantothenate synthase | PANTS | pant_R_c + atp_c + ala_B_c ⇋ pnto_R_c + h_c + amp_c + ppi_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | pantetheine-phosphate adenylyltransferase | PTPATi | h_c + atp_c + pan4p_c ⇋ ppi_c + dpcoa_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | phosphopantothenate-cysteine ligase | PPNCL2 | cys_L_c + 4ppan_c + ctp_c ⇋ 4ppcys_c + ppi_c + cmp_c + h_c | 0 | 1000 | 0.0028 | 0.0028 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin synthase sulfurylase | MPTSS | moadcoo_c + h_c + atp_c ⇋ ppi_c + moadamp_c | 0 | 1000 | 0.0024 | 0.0024 |
| Cofactor and Prosthetic Group Biosynthesis | GTP cyclohydrolase II (25drapp) | GTPCII2 | gtp_c + 3 h2o_c ⇋ ppi_c + 25drapp_c + for_c + 2 h_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | Undecaprenyl diphosphate synthase | UDCPDPS | 8 ipdp_c + frdp_c ⇋ 8 ppi_c + udcpdp_c | 0 | 1000 | 0.00027 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | geranyltranstransferase | GRTT | ipdp_c + grdp_c ⇋ frdp_c + ppi_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | dimethylallyltranstransferase | DMATT | dmpp_c + ipdp_c ⇋ grdp_c + ppi_c | 0 | 1000 | 0.0014 | 0.0014 |
| Cofactor and Prosthetic Group Biosynthesis | cyclic pyranopterin monophosphate synthase | CPMPS | gtp_c + h2o_c ⇋ ppi_c + cpmp_c | 0 | 1000 | 0.0012 | 0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | molybdopterin adenylyltransferase | MPTAT | mpt_c + h_c + atp_c ⇋ mptamp_c + ppi_c | 0 | 1000 | 0.0012 | 0.0012 |
| Cofactor and Prosthetic Group Biosynthesis | FMN adenylyltransferase | FMNAT | h_c + atp_c + fmn_c ⇋ fad_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Hydroxybenzoate octaprenyltransferase | HBZOPT | 4hbz_c + octdp_c ⇋ 3ophb_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiazole phosphate synthesis | THZPSN3 | dhgly_c + nadph_c + iscssh_c + dxyl5p_c + atp_c + h_c ⇋ nadp_c + 4mpetz_c + co2_c + 2 h2o_c + iscs_c + amp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate diphosphorylase | TMPPP | 4mpetz_c + 2mahmp_c + h_c ⇋ thmmp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase (single GDP) | BMOGDS1 | bmoco_c + h_c + gtp_c ⇋ bmoco1gdp_c + ppi_c | 0 | 1000 | 0.0006 | 0.0006 |
| Cofactor and Prosthetic Group Biosynthesis | bis-molybdopterin guanine dinucleotide synthase | BMOGDS2 | bmoco1gdp_c + h_c + gtp_c ⇋ ppi_c + bmocogdp_c | 0 | 1000 | 0.0006 | 0.0006 |
| Oxidative Phosphorylation | polyphosphate kinase | PPKr | ppi_c + adp_c ⇋ atp_c + pi_c | -1000 | 1000 | 17 | -17 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | protoporphyrinogen oxidase (anaerobic) | PPPGO3 | pppg9_c + 3 fum_c ⇋ ppp9_c + 3 succ_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | Ferrochelatase | FCLT | ppp9_c + fe2_c ⇋ 2 h_c + pheme_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | coproporphyrinogen oxidase (O2 required) | CPPPGO | o2_c + 2 h_c + cpppg3_c ⇋ pppg9_c + 2 co2_c + 2 h2o_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | protoporphyrinogen oxidase (anaerobic) | PPPGO3 | pppg9_c + 3 fum_c ⇋ ppp9_c + 3 succ_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | glutamine phosphoribosyldiphosphate amidotransferase | GLUPRT | gln_L_c + prpp_c + h2o_c ⇋ ppi_c + glu_L_c + pram_c | 0 | 1000 | 2.2 | 2.2 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide synthase | PRAGSr | gly_c + pram_c + atp_c ⇋ adp_c + h_c + gar_c + pi_c | -1000 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate phosphoribosyltransferase | ANPRT | prpp_c + anth_c ⇋ ppi_c + pran_c | 0 | 1000 | 0.28 | 0.28 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | phosphoribosylanthranilate isomerase (irreversible) | PRAIi | pran_c ⇋ 2cpr5p_c | 0 | 1000 | 0.28 | -0.28 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | phosphoribosyl-ATP pyrophosphatase | PRATPP | prbatp_c + h2o_c ⇋ ppi_c + prbamp_c + h_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | phosphoribosyl-AMP cyclohydrolase | PRAMPC | prbamp_c + h2o_c ⇋ prfp_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | ATP phosphoribosyltransferase | ATPPRT | atp_c + prpp_c ⇋ prbatp_c + ppi_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | phosphoribosyl-ATP pyrophosphatase | PRATPP | prbatp_c + h2o_c ⇋ ppi_c + prbamp_c + h_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | phosphoribosyl-AMP cyclohydrolase | PRAMPC | prbamp_c + h2o_c ⇋ prfp_c | 0 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase | PRMICI | prfp_c ⇋ prlp_c | -1000 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase | PRMICI | prfp_c ⇋ prlp_c | -1000 | 1000 | 0.47 | 0.47 |
| Histidine Metabolism | Imidazole-glycerol-3-phosphate synthase | IG3PS | prlp_c + gln_L_c ⇋ eig3p_c + glu_L_c + h_c + aicar_c | 0 | 1000 | 0.47 | -0.47 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Arginine and Proline Metabolism | pyrroline-5-carboxylate reductase | P5CR | 1pyr5c_c + 2 h_c + nadph_c ⇋ nadp_c + pro_L_c | 0 | 1000 | 1.1 | 1.1 |
| Transport, Inner Membrane | Na+/Proline-L symporter (periplasm) | PROt4pp | na1_p + pro_L_p ⇋ pro_L_c + na1_c | 0 | 1000 | 0.026 | 0.026 |
| Transport, Inner Membrane | L-proline reversible transport via proton symport (periplasm) | PROt2rpp | h_c + pro_L_c ⇋ pro_L_p + h_p | -1000 | 1000 | 0.026 | -0.026 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Histidine Metabolism | phosphoribosylpyrophosphate synthetase | PRPPS | atp_c + r5p_c ⇋ amp_c + h_c + prpp_c | -1000 | 1000 | 4.6 | 4.6 |
| Cofactor and Prosthetic Group Biosynthesis | nicotinate-nucleotide diphosphorylase (carboxylating) | NNDPR | quln_c + 2 h_c + prpp_c ⇋ nicrnt_c + ppi_c + co2_c | 0 | 1000 | 0.011 | -0.011 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate phosphoribosyltransferase | ANPRT | prpp_c + anth_c ⇋ ppi_c + pran_c | 0 | 1000 | 0.28 | -0.28 |
| Histidine Metabolism | ATP phosphoribosyltransferase | ATPPRT | atp_c + prpp_c ⇋ prbatp_c + ppi_c | 0 | 1000 | 0.47 | -0.47 |
| Purine and Pyrimidine Biosynthesis | orotate phosphoribosyltransferase | ORPT | orot_c + prpp_c ⇋ orot5p_c + ppi_c | -1000 | 1000 | 1.6 | -1.6 |
| Purine and Pyrimidine Biosynthesis | glutamine phosphoribosyldiphosphate amidotransferase | GLUPRT | gln_L_c + prpp_c + h2o_c ⇋ ppi_c + glu_L_c + pram_c | 0 | 1000 | 2.2 | -2.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:0) | PSSA160 | cdpdhdecg_c + ser_L_c ⇋ ps160_c + cmp_c + h_c | 0 | 1000 | 0.31 | 0.31 |
| Glycerophospholipid Metabolism | Phosphatidylserine decarboxylase (n-C16:0) | PSD160 | h_c + ps160_c ⇋ pe160_c + co2_c | 0 | 1000 | 0.31 | -0.31 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:1) | PSSA161 | cdpdhdec9eg_c + ser_L_c ⇋ cmp_c + ps161_c + h_c | 0 | 1000 | 0.37 | 0.37 |
| Glycerophospholipid Metabolism | Phosphatidylserine decarboxylase (n-C16:1) | PSD161 | ps161_c + h_c ⇋ co2_c + pe161_c | 0 | 1000 | 0.37 | -0.37 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | pyridoxine 5'-phosphate oxidase | PDX5POi | pdx5p_c + o2_c ⇋ h2o2_c + pydx5p_c | 0 | 1000 | 0.0011 | 0.0011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pyruvate Metabolism | pyruvate synthase | POR5 | h_c + 2 flxr_c + co2_c + accoa_c ⇋ coa_c + 2 flxso_c + pyr_c | -1000 | 1000 | 1e+02 | 1e+02 |
| Glycine and Serine Metabolism | L-serine deaminase | SERD_L | ser_L_c ⇋ pyr_c + nh4_c | 0 | 1000 | 54 | 54 |
| Methionine Metabolism | cystathionine b-lyase | CYSTL | cyst_L_c + h2o_c ⇋ pyr_c + hcys_L_c + nh4_c | 0 | 1000 | 0.76 | 0.76 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | anthranilate synthase | ANS | chor_c + gln_L_c ⇋ pyr_c + h_c + anth_c + glu_L_c | 0 | 1000 | 0.28 | 0.28 |
| Cofactor and Prosthetic Group Biosynthesis | 4-aminobenzoate synthase | ADCL | 4adcho_c ⇋ h_c + 4abz_c + pyr_c | 0 | 1000 | 0.0033 | 0.0033 |
| Cofactor and Prosthetic Group Biosynthesis | Chorismate pyruvate lyase | CHRPL | chor_c ⇋ 4hbz_c + pyr_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | 1-deoxy-D-xylulose 5-phosphate synthase | DXPS | pyr_c + g3p_c + h_c ⇋ dxyl5p_c + co2_c | 0 | 1000 | 0.014 | -0.014 |
| Valine, Leucine, and Isoleucine Metabolism | 2-aceto-2-hydroxybutanoate synthase | ACHBS | pyr_c + 2obut_c + h_c ⇋ 2ahbut_c + co2_c | 0 | 1000 | 1.4 | -1.4 |
| Threonine and Lysine Metabolism | dihydrodipicolinate synthase | DHDPS | pyr_c + aspsa_c ⇋ h_c + 2 h2o_c + 23dhdp_c | 0 | 1000 | 1.8 | -1.8 |
| Alanine and Aspartate Metabolism | L-alanine transaminase | ALATA_L | pyr_c + glu_L_c ⇋ ala_L_c + akg_c | -1000 | 1000 | 2.9 | -2.9 |
| Valine, Leucine, and Isoleucine Metabolism | acetolactate synthase | ACLS | h_c + 2 pyr_c ⇋ alac_S_c + co2_c | 0 | 1000 | 4.3 | -8.6 |
| Glycolysis/Gluconeogenesis | phosphoenolpyruvate synthase | PPS | pyr_c + h2o_c + atp_c ⇋ amp_c + pep_c + 2 h_c + pi_c | 0 | 1000 | 1.4e+02 | -1.4e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | cytochrome oxidase bo3 (ubiquinol-8: 4 protons) (periplasm) | CYTBO3_4pp | 0.5 o2_c + q8h2_c + 4 h_c ⇋ h2o_c + q8_c + 4 h_p | 0 | 1000 | 5.7e+02 | 5.7e+02 |
| Oxidative Phosphorylation | succinate dehydrogenase (irreversible) | SUCDi | q8_c + succ_c ⇋ fum_c + q8h2_c | 0 | 1000 | 0.0033 | -0.0033 |
| Alternate Carbon Metabolism | Glycolate oxidase | GLYCTO2 | q8_c + glyclt_c ⇋ q8h2_c + glx_c | 0 | 1000 | 0.0033 | -0.0033 |
| Purine and Pyrimidine Biosynthesis | dihydoorotic acid dehydrogenase (quinone8) | DHORD2 | q8_c + dhor_S_c ⇋ orot_c + q8h2_c | 0 | 1000 | 1.6 | -1.6 |
| Oxidative Phosphorylation | NADH dehydrogenase (ubiquinone-8 & 3 protons) (periplasm) | NADH16pp | nadh_c + 4 h_c + q8_c ⇋ nad_c + 3 h_p + q8h2_c | 0 | 1000 | 5.7e+02 | -5.7e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | NADH dehydrogenase (ubiquinone-8 & 3 protons) (periplasm) | NADH16pp | nadh_c + 4 h_c + q8_c ⇋ nad_c + 3 h_p + q8h2_c | 0 | 1000 | 5.7e+02 | 5.7e+02 |
| Purine and Pyrimidine Biosynthesis | dihydoorotic acid dehydrogenase (quinone8) | DHORD2 | q8_c + dhor_S_c ⇋ orot_c + q8h2_c | 0 | 1000 | 1.6 | 1.6 |
| Alternate Carbon Metabolism | Glycolate oxidase | GLYCTO2 | q8_c + glyclt_c ⇋ q8h2_c + glx_c | 0 | 1000 | 0.0033 | 0.0033 |
| Oxidative Phosphorylation | succinate dehydrogenase (irreversible) | SUCDi | q8_c + succ_c ⇋ fum_c + q8h2_c | 0 | 1000 | 0.0033 | 0.0033 |
| Oxidative Phosphorylation | cytochrome oxidase bo3 (ubiquinol-8: 4 protons) (periplasm) | CYTBO3_4pp | 0.5 o2_c + q8h2_c + 4 h_c ⇋ h2o_c + q8_c + 4 h_p | 0 | 1000 | 5.7e+02 | -5.7e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | quinolinate synthase | QULNS | dhap_c + iasp_c ⇋ quln_c + pi_c + 2 h2o_c | 0 | 1000 | 0.011 | 0.011 |
| Cofactor and Prosthetic Group Biosynthesis | nicotinate-nucleotide diphosphorylase (carboxylating) | NNDPR | quln_c + 2 h_c + prpp_c ⇋ nicrnt_c + ppi_c + co2_c | 0 | 1000 | 0.011 | -0.011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Alternate Carbon Metabolism | phosphopentomutase | PPM | r5p_c ⇋ r1p_c | -1000 | 1000 | 0.0033 | 0.0033 |
| Nucleotide Salvage Pathway | purine-nucleoside phosphorylase (Adenosine) | PUNP1 | ade_c + r1p_c ⇋ pi_c + adn_c | -1000 | 1000 | 0.0033 | -0.0033 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pentose Phosphate Pathway | transketolase1 | TKT1 | g3p_c + s7p_c ⇋ r5p_c + xu5p_D_c | -1000 | 1000 | 13 | 13 |
| Alternate Carbon Metabolism | phosphopentomutase | PPM | r5p_c ⇋ r1p_c | -1000 | 1000 | 0.0033 | -0.0033 |
| Histidine Metabolism | phosphoribosylpyrophosphate synthetase | PRPPS | atp_c + r5p_c ⇋ amp_c + h_c + prpp_c | -1000 | 1000 | 4.6 | -4.6 |
| Pentose Phosphate Pathway | ribose-5-phosphate isomerase | RPI | r5p_c ⇋ ru5p_D_c | -1000 | 1000 | 8.2 | -8.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | S-adenosylhomocysteine nucleosidase | AHCYSNS | h2o_c + ahcys_c ⇋ ade_c + rhcys_c | 0 | 1000 | 0.0022 | 0.0022 |
| Methionine Metabolism | S-ribosylhomocysteine cleavage enzyme | RHCCE | rhcys_c ⇋ dhptd_c + hcys_L_c | 0 | 1000 | 0.0022 | -0.0022 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin synthase | RBFSb | 2 dmlz_c ⇋ 4r5au_c + ribflv_c | 0 | 1000 | 0.0022 | 0.0022 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 | |
| Cofactor and Prosthetic Group Biosynthesis | riboflavin kinase | RBFK | atp_c + ribflv_c ⇋ adp_c + h_c + fmn_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pentose Phosphate Pathway | ribulose 5-phosphate 3-epimerase | RPE | xu5p_D_c ⇋ ru5p_D_c | -1000 | 1000 | 28 | 28 |
| Pentose Phosphate Pathway | ribose-5-phosphate isomerase | RPI | r5p_c ⇋ ru5p_D_c | -1000 | 1000 | 8.2 | 8.2 |
| Cofactor and Prosthetic Group Biosynthesis | 3,4-Dihydroxy-2-butanone-4-phosphate synthase | DB4PS | ru5p_D_c ⇋ db4p_c + for_c + h_c | 0 | 1000 | 0.0044 | -0.0044 |
| Alternate Carbon Metabolism | arabinose-5-phosphate isomerase | A5PISO | ru5p_D_c ⇋ ara5p_c | -1000 | 1000 | 0.19 | -0.19 |
| PRK+RuBisCO | PRK+RBC | co2_c + atp_c + ru5p_D_c + h2o_c ⇋ 3 h_c + adp_c + 2 3pg_c | 0 | 1000 | 36 | -36 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pentose Phosphate Pathway | transaldolase | TALA | f6p_c + e4p_c ⇋ g3p_c + s7p_c | -1000 | 1000 | 13 | 13 |
| Pentose Phosphate Pathway | transketolase1 | TKT1 | g3p_c + s7p_c ⇋ r5p_c + xu5p_D_c | -1000 | 1000 | 13 | -13 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin dehydrogenase (NAD) | SHCHD2 | dscl_c + nad_c ⇋ nadh_c + scl_c + h_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin ferrochelatase | SHCHF | scl_c + fe2_c ⇋ sheme_c + 3 h_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycine and Serine Metabolism | glycine hydroxymethyltransferase, reversible | GHMT2r | gly_c + mlthf_c + h2o_c ⇋ thf_c + ser_L_c | -1000 | 1000 | 57 | 57 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tryptophan synthase (indoleglycerol phosphate) | TRPS1 | ser_L_c + 3ig3p_c ⇋ g3p_c + trp_L_c + h2o_c | 0 | 1000 | 0.28 | -0.28 |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:0) | PSSA160 | cdpdhdecg_c + ser_L_c ⇋ ps160_c + cmp_c + h_c | 0 | 1000 | 0.31 | -0.31 |
| Glycerophospholipid Metabolism | Phosphatidylserine syntase (n-C16:1) | PSSA161 | cdpdhdec9eg_c + ser_L_c ⇋ cmp_c + ps161_c + h_c | 0 | 1000 | 0.37 | -0.37 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.1 | |
| Cysteine Metabolism | serine O-acetyltransferase | SERAT | accoa_c + ser_L_c ⇋ acser_c + coa_c | -1000 | 1000 | 1.2 | -1.2 |
| Glycine and Serine Metabolism | L-serine deaminase | SERD_L | ser_L_c ⇋ pyr_c + nh4_c | 0 | 1000 | 54 | -54 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | sirohydrochlorin ferrochelatase | SHCHF | scl_c + fe2_c ⇋ sheme_c + 3 h_c | 0 | 1000 | 0.0011 | 0.0011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate dehydrogenase | SHK3Dr | h_c + 3dhsk_c + nadph_c ⇋ skm_c + nadp_c | -1000 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate kinase | SHKK | skm_c + atp_c ⇋ skm5p_c + adp_c + h_c | 0 | 1000 | 1.9 | -1.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | shikimate kinase | SHKK | skm_c + atp_c ⇋ skm5p_c + adp_c + h_c | 0 | 1000 | 1.9 | 1.9 |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | 3-phosphoshikimate 1-carboxyvinyltransferase | PSCVT | skm5p_c + pep_c ⇋ 3psme_c + pi_c | -1000 | 1000 | 1.9 | -1.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | succinyldiaminopimelate transaminase | SDPTA | glu_L_c + sl2a6o_c ⇋ sl26da_c + akg_c | -1000 | 1000 | 1.8 | 1.8 |
| Threonine and Lysine Metabolism | succinyl-diaminopimelate desuccinylase | SDPDS | sl26da_c + h2o_c ⇋ succ_c + 26dap_LL_c | 0 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | tetrahydrodipicolinate succinylase | THDPS | thdp_c + h2o_c + succoa_c ⇋ coa_c + sl2a6o_c | 0 | 1000 | 1.8 | 1.8 |
| Threonine and Lysine Metabolism | succinyldiaminopimelate transaminase | SDPTA | glu_L_c + sl2a6o_c ⇋ sl26da_c + akg_c | -1000 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cysteine Metabolism | phosphoadenylyl-sulfate reductase (thioredoxin) | PAPSR | paps_c + trdrd_c ⇋ 2 h_c + so3_c + pap_c + trdox_c | 0 | 1000 | 1.2 | 1.2 |
| Cysteine Metabolism | sulfite reductase (NADPH2) | SULRi | 5 h_c + so3_c + 3 nadph_c ⇋ h2s_c + 3 h2o_c + 3 nadp_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | sulfate transport in via proton symport (periplasm to cytoplasm) | SO4t2pp | so4_p + h_p ⇋ h_c + so4_c | 0 | 1000 | 1.2 | 1.2 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.021 | |
| Cysteine Metabolism | Sulfate adenyltransferase | SADT2 | so4_c + atp_c + h2o_c + gtp_c ⇋ aps_c + ppi_c + pi_c + gdp_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | succinyl-diaminopimelate desuccinylase | SDPDS | sl26da_c + h2o_c ⇋ succ_c + 26dap_LL_c | 0 | 1000 | 1.8 | 1.8 |
| Methionine Metabolism | O-succinylhomoserine lyase (L-cysteine) | SHSL1 | cys_L_c + suchms_c ⇋ cyst_L_c + h_c + succ_c | 0 | 1000 | 0.76 | 0.76 |
| Cofactor and Prosthetic Group Biosynthesis | protoporphyrinogen oxidase (anaerobic) | PPPGO3 | pppg9_c + 3 fum_c ⇋ ppp9_c + 3 succ_c | 0 | 1000 | 0.0011 | 0.0033 |
| Oxidative Phosphorylation | succinate dehydrogenase (irreversible) | SUCDi | q8_c + succ_c ⇋ fum_c + q8h2_c | 0 | 1000 | 0.0033 | -0.0033 |
| Citric Acid Cycle | succinyl-CoA synthetase (ADP-forming) | SUCOAS | coa_c + atp_c + succ_c ⇋ adp_c + pi_c + succoa_c | -1000 | 1000 | 2.6 | -2.6 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Citric Acid Cycle | succinyl-CoA synthetase (ADP-forming) | SUCOAS | coa_c + atp_c + succ_c ⇋ adp_c + pi_c + succoa_c | -1000 | 1000 | 2.6 | 2.6 |
| Methionine Metabolism | homoserine O-succinyltransferase | HSST | hom_L_c + succoa_c ⇋ suchms_c + coa_c | 0 | 1000 | 0.76 | -0.76 |
| Threonine and Lysine Metabolism | tetrahydrodipicolinate succinylase | THDPS | thdp_c + h2o_c + succoa_c ⇋ coa_c + sl2a6o_c | 0 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Methionine Metabolism | homoserine O-succinyltransferase | HSST | hom_L_c + succoa_c ⇋ suchms_c + coa_c | 0 | 1000 | 0.76 | 0.76 |
| Methionine Metabolism | O-succinylhomoserine lyase (L-cysteine) | SHSL1 | cys_L_c + suchms_c ⇋ cyst_L_c + h_c + succ_c | 0 | 1000 | 0.76 | -0.76 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | 3-hydroxyacyl-CoA dehydratase (3-hydroxytetradecanoyl-CoA) | ECOAH6 | 3htdcoa_c ⇋ td2coa_c + h2o_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (tetradecanoyl-CoA) | ACOAD6f | td2coa_c + fadh2_c ⇋ tdcoa_c + fad_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Membrane Lipid Metabolism | acyl-CoA dehydrogenase (tetradecanoyl-CoA) | ACOAD6f | td2coa_c + fadh2_c ⇋ tdcoa_c + fad_c | -1000 | 1000 | 1.4 | 1.4 |
| Membrane Lipid Metabolism | acetyl-CoA C-acyltransferase (tetradecanoyl-CoA) (r) | ACACT7r | tdcoa_c + accoa_c ⇋ coa_c + 3ohdcoa_c | -1000 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | dihydrodipicolinate reductase (NADPH) | DHDPRy | 23dhdp_c + h_c + nadph_c ⇋ nadp_c + thdp_c | 0 | 1000 | 1.8 | 1.8 |
| Threonine and Lysine Metabolism | tetrahydrodipicolinate succinylase | THDPS | thdp_c + h2o_c + succoa_c ⇋ coa_c + sl2a6o_c | 0 | 1000 | 1.8 | -1.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Glycine and Serine Metabolism | glycine hydroxymethyltransferase, reversible | GHMT2r | gly_c + mlthf_c + h2o_c ⇋ thf_c + ser_L_c | -1000 | 1000 | 57 | 57 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylaminoimidazolecarboxamide formyltransferase | AICART | 10fthf_c + aicar_c ⇋ fprica_c + thf_c | -1000 | 1000 | 2.7 | 2.7 |
| Purine and Pyrimidine Biosynthesis | phosphoribosylglycinamide formyltransferase | GARFT | 10fthf_c + gar_c ⇋ fgam_c + thf_c + h_c | -1000 | 1000 | 2.2 | 2.2 |
| Methionine Metabolism | methionine synthase | METS | hcys_L_c + 5mthf_c ⇋ h_c + met_L_c + thf_c | 0 | 1000 | 0.76 | 0.76 |
| Cofactor and Prosthetic Group Biosynthesis | dihydrofolate reductase | DHFR | h_c + dhf_c + nadph_c ⇋ nadp_c + thf_c | -1000 | 1000 | 0.13 | 0.13 |
| Cofactor and Prosthetic Group Biosynthesis | 3-methyl-2-oxobutanoate hydroxymethyltransferase | MOHMT | 3mob_c + mlthf_c + h2o_c ⇋ thf_c + 2dhp_c | 0 | 1000 | 0.0028 | 0.0028 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 | |
| Folate Metabolism | Glycine Cleavage System | GLYCL | gly_c + nad_c + thf_c ⇋ mlthf_c + nadh_c + co2_c + nh4_c | 0 | 1000 | 63 | -63 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate diphosphorylase | TMPPP | 4mpetz_c + 2mahmp_c + h_c ⇋ thmmp_c + ppi_c | 0 | 1000 | 0.0011 | 0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate kinase | TMPK | thmmp_c + atp_c ⇋ adp_c + thmpp_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | thiamine-phosphate kinase | TMPK | thmmp_c + atp_c ⇋ adp_c + thmpp_c | 0 | 1000 | 0.0011 | 0.0011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Threonine and Lysine Metabolism | threonine synthase | THRS | h2o_c + phom_c ⇋ pi_c + thr_L_c | 0 | 1000 | 1.3e+02 | 1.3e+02 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -1.3 | |
| Valine, Leucine, and Isoleucine Metabolism | L-threonine deaminase | THRD_L | thr_L_c ⇋ 2obut_c + nh4_c | 0 | 1000 | 1.4 | -1.4 |
| Glycine and Serine Metabolism | L-threonine dehydrogenase | THRD | nad_c + thr_L_c ⇋ nadh_c + h_c + 2aobut_c | 0 | 1000 | 1.3e+02 | -1.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cysteine Metabolism | phosphoadenylyl-sulfate reductase (thioredoxin) | PAPSR | paps_c + trdrd_c ⇋ 2 h_c + so3_c + pap_c + trdox_c | 0 | 1000 | 1.2 | 1.2 |
| Nucleotide Salvage Pathway | ribonucleoside-diphosphate reductase (GDP) | RNDR2 | gdp_c + trdrd_c ⇋ dgdp_c + h2o_c + trdox_c | 0 | 1000 | 0.13 | 0.13 |
| Oxidative Phosphorylation | thioredoxin reductase (NADPH) | TRDR | h_c + trdox_c + nadph_c ⇋ nadp_c + trdrd_c | 0 | 1000 | 1.4 | -1.4 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | thioredoxin reductase (NADPH) | TRDR | h_c + trdox_c + nadph_c ⇋ nadp_c + trdrd_c | 0 | 1000 | 1.4 | 1.4 |
| Nucleotide Salvage Pathway | ribonucleoside-diphosphate reductase (GDP) | RNDR2 | gdp_c + trdrd_c ⇋ dgdp_c + h2o_c + trdox_c | 0 | 1000 | 0.13 | -0.13 |
| Cysteine Metabolism | phosphoadenylyl-sulfate reductase (thioredoxin) | PAPSR | paps_c + trdrd_c ⇋ 2 h_c + so3_c + pap_c + trdox_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | glutamyl-tRNA reductase | GLUTRR | glutrna_c + h_c + nadph_c ⇋ glu1sa_c + nadp_c + trnaglu_c | 0 | 1000 | 0.018 | 0.018 |
| Cofactor and Prosthetic Group Biosynthesis | Glutamyl-tRNA synthetase | GLUTRS | glu_L_c + atp_c + trnaglu_c ⇋ glutrna_c + amp_c + ppi_c | 0 | 1000 | 0.018 | -0.018 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tryptophan synthase (indoleglycerol phosphate) | TRPS1 | ser_L_c + 3ig3p_c ⇋ g3p_c + trp_L_c + h2o_c | 0 | 1000 | 0.28 | 0.28 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.28 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Tyrosine, Tryptophan, and Phenylalanine Metabolism | tyrosine transaminase | TYRTA | 34hpp_c + glu_L_c ⇋ tyr_L_c + akg_c | -1000 | 1000 | 0.68 | 0.68 |
| Cofactor and Prosthetic Group Biosynthesis | tyrosine lyase | TYRL | tyr_L_c + amet_c + nadph_c ⇋ dhgly_c + nadp_c + met_L_c + 4crsol_c + dad_5_c + h_c | 0 | 1000 | 0.0011 | -0.0011 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.68 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-(3-hydroxymyristoyl)glucosamine acyltransferase | U23GAAT | 3hmrsACP_c + u3hga_c ⇋ ACP_c + h_c + u23ga_c | 0 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | Lipid A disaccaride synthase | LPADSS | u23ga_c + lipidX_c ⇋ udp_c + h_c + lipidAds_c | 0 | 1000 | 0.096 | -0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-sugar hydrolase | USHD | u23ga_c + h2o_c ⇋ ump_c + 2 h_c + lipidX_c | 0 | 1000 | 0.096 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-N-acetylglucosamine acyltransferase | UAGAAT | uacgam_c + 3hmrsACP_c ⇋ ACP_c + u3aga_c | -1000 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-acetylglucosamine deacetylase | UHGADA | h2o_c + u3aga_c ⇋ ac_c + u3hga_c | 0 | 1000 | 0.19 | -0.19 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-acetylglucosamine deacetylase | UHGADA | h2o_c + u3aga_c ⇋ ac_c + u3hga_c | 0 | 1000 | 0.19 | 0.19 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-3-O-(3-hydroxymyristoyl)glucosamine acyltransferase | U23GAAT | 3hmrsACP_c + u3hga_c ⇋ ACP_c + h_c + u23ga_c | 0 | 1000 | 0.19 | -0.19 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferase | UAGPT3 | uacgam_c + uagmda_c ⇋ udp_c + h_c + uaagmda_c | 0 | 1000 | 0.14 | 0.14 |
| Murein Biosynthesis | murein polymerizing transglycosylase | MPTG | 2 uaagmda_c ⇋ 2 h_c + murein5p5p_p + 2 udcpdp_c | 0 | 1000 | 0.068 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | UAGCVT | uacgam_c + pep_c ⇋ pi_c + uaccg_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylenolpyruvoylglucosamine reductase | UAPGR | nadph_c + h_c + uaccg_c ⇋ nadp_c + uamr_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine diphosphorylase | UAGDP | utp_c + h_c + acgam1p_c ⇋ ppi_c + uacgam_c | 0 | 1000 | 0.47 | 0.47 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | UAGCVT | uacgam_c + pep_c ⇋ pi_c + uaccg_c | 0 | 1000 | 0.14 | -0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferase | UAGPT3 | uacgam_c + uagmda_c ⇋ udp_c + h_c + uaagmda_c | 0 | 1000 | 0.14 | -0.14 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-N-acetylglucosamine acyltransferase | UAGAAT | uacgam_c + 3hmrsACP_c ⇋ ACP_c + u3aga_c | -1000 | 1000 | 0.19 | -0.19 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | phospho-N-acetylmuramoyl-pentapeptide-transferase (meso-2,6-diaminopimelate) | PAPPT3 | ugmda_c + udcpp_c ⇋ ump_c + uagmda_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferase | UAGPT3 | uacgam_c + uagmda_c ⇋ udp_c + h_c + uaagmda_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanine synthetase | UAMAS | uamr_c + ala_L_c + atp_c ⇋ uama_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase | UAMAGS | uama_c + atp_c + glu_D_c ⇋ uamag_c + h_c + adp_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase | UAMAGS | uama_c + atp_c + glu_D_c ⇋ uamag_c + h_c + adp_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelate synthetase | UAAGDS | uamag_c + 26dap_M_c + atp_c ⇋ ugmd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | UDP-N-acetylenolpyruvoylglucosamine reductase | UAPGR | nadph_c + h_c + uaccg_c ⇋ nadp_c + uamr_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanine synthetase | UAMAS | uamr_c + ala_L_c + atp_c ⇋ uama_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Murein Biosynthesis | murein polymerizing transglycosylase | MPTG | 2 uaagmda_c ⇋ 2 h_c + murein5p5p_p + 2 udcpdp_c | 0 | 1000 | 0.068 | 0.14 |
| Cofactor and Prosthetic Group Biosynthesis | Undecaprenyl diphosphate synthase | UDCPDPS | 8 ipdp_c + frdp_c ⇋ 8 ppi_c + udcpdp_c | 0 | 1000 | 0.00027 | 0.00027 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.00027 | |
| Cell Envelope Biosynthesis | undecaprenyl-diphosphatase | UDCPDP | h2o_c + udcpdp_c ⇋ udcpp_c + h_c + pi_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | undecaprenyl-diphosphatase | UDCPDP | h2o_c + udcpdp_c ⇋ udcpp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | phospho-N-acetylmuramoyl-pentapeptide-transferase (meso-2,6-diaminopimelate) | PAPPT3 | ugmda_c + udcpp_c ⇋ ump_c + uagmda_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | UMP kinase | UMPK | atp_c + ump_c ⇋ udp_c + adp_c | -1000 | 1000 | 1.9 | 1.9 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferase | UAGPT3 | uacgam_c + uagmda_c ⇋ udp_c + h_c + uaagmda_c | 0 | 1000 | 0.14 | 0.14 |
| Lipopolysaccharide Biosynthesis / Recycling | Lipid A disaccaride synthase | LPADSS | u23ga_c + lipidX_c ⇋ udp_c + h_c + lipidAds_c | 0 | 1000 | 0.096 | 0.096 |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:UDP) | NDPK2 | udp_c + atp_c ⇋ adp_c + utp_c | -1000 | 1000 | 2.1 | -2.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelate synthetase | UAAGDS | uamag_c + 26dap_M_c + atp_c ⇋ ugmd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine synthetase | UGMDDS | ugmd_c + alaala_c + atp_c ⇋ adp_c + h_c + pi_c + ugmda_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cell Envelope Biosynthesis | UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine synthetase | UGMDDS | ugmd_c + alaala_c + atp_c ⇋ adp_c + h_c + pi_c + ugmda_c | 0 | 1000 | 0.14 | 0.14 |
| Cell Envelope Biosynthesis | phospho-N-acetylmuramoyl-pentapeptide-transferase (meso-2,6-diaminopimelate) | PAPPT3 | ugmda_c + udcpp_c ⇋ ump_c + uagmda_c | 0 | 1000 | 0.14 | -0.14 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | orotidine-5'-phosphate decarboxylase | OMPDC | h_c + orot5p_c ⇋ co2_c + ump_c | 0 | 1000 | 1.6 | 1.6 |
| Cell Envelope Biosynthesis | phospho-N-acetylmuramoyl-pentapeptide-transferase (meso-2,6-diaminopimelate) | PAPPT3 | ugmda_c + udcpp_c ⇋ ump_c + uagmda_c | 0 | 1000 | 0.14 | 0.14 |
| Lipopolysaccharide Biosynthesis / Recycling | UDP-sugar hydrolase | USHD | u23ga_c + h2o_c ⇋ ump_c + 2 h_c + lipidX_c | 0 | 1000 | 0.096 | 0.096 |
| Nucleotide Salvage Pathway | UMP kinase | UMPK | atp_c + ump_c ⇋ udp_c + adp_c | -1000 | 1000 | 1.9 | -1.9 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen-III synthase | UPP3S | hmbil_c ⇋ h2o_c + uppg3_c | 0 | 1000 | 0.0022 | 0.0022 |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen methyltransferase | UPP3MT | uppg3_c + 2 amet_c ⇋ dscl_c + 2 ahcys_c + h_c | 0 | 1000 | 0.0011 | -0.0011 |
| Cofactor and Prosthetic Group Biosynthesis | uroporphyrinogen decarboxylase (uroporphyrinogen III) | UPPDC1 | uppg3_c + 4 h_c ⇋ cpppg3_c + 4 co2_c | 0 | 1000 | 0.0011 | -0.0011 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Nucleotide Salvage Pathway | nucleoside-diphosphate kinase (ATP:UDP) | NDPK2 | udp_c + atp_c ⇋ adp_c + utp_c | -1000 | 1000 | 2.1 | 2.1 |
| Nucleotide Salvage Pathway | ribonucleoside-triphosphate reductase (UTP) (flavodoxin) | RNTR4c2 | 2 h_c + utp_c + 2 flxr_c ⇋ h2o_c + 2 flxso_c + dutp_c | 0 | 1000 | 0.13 | -0.13 |
| Cell Envelope Biosynthesis | UDP-N-acetylglucosamine diphosphorylase | UAGDP | utp_c + h_c + acgam1p_c ⇋ ppi_c + uacgam_c | 0 | 1000 | 0.47 | -0.47 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.71 | |
| Purine and Pyrimidine Biosynthesis | CTP synthase (glutamine) | CTPS2 | utp_c + atp_c + gln_L_c + h2o_c ⇋ glu_L_c + adp_c + 2 h_c + ctp_c + pi_c | 0 | 1000 | 0.79 | -0.79 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Valine, Leucine, and Isoleucine Metabolism | valine transaminase | VALTA | 3mob_c + glu_L_c ⇋ akg_c + val_L_c | -1000 | 1000 | 2.1 | 2.1 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -2.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Purine and Pyrimidine Biosynthesis | IMP dehydrogenase | IMPD | nad_c + h2o_c + imp_c ⇋ nadh_c + h_c + xmp_c | 0 | 1000 | 1.2 | 1.2 |
| Purine and Pyrimidine Biosynthesis | GMP synthase | GMPS2 | gln_L_c + h2o_c + xmp_c + atp_c ⇋ glu_L_c + gmp_c + ppi_c + amp_c + 2 h_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Pentose Phosphate Pathway | transketolase2 | TKT2 | g3p_c + f6p_c ⇋ xu5p_D_c + e4p_c | -1000 | 1000 | 15 | 15 |
| Pentose Phosphate Pathway | transketolase1 | TKT1 | g3p_c + s7p_c ⇋ r5p_c + xu5p_D_c | -1000 | 1000 | 13 | 13 |
| Pentose Phosphate Pathway | ribulose 5-phosphate 3-epimerase | RPE | xu5p_D_c ⇋ ru5p_D_c | -1000 | 1000 | 28 | -28 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | zinc transport in via permease (no H+) | ZN2tpp | zn2_p ⇋ zn2_c | 0 | 1000 | 0.0017 | 0.0017 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.0017 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Calcium exchange | EX_ca2_e | ⇋ ca2_e | -1000 | 1000 | 0.026 | 0.026 | |
| Transport, Outer Membrane Porin | calcium (Ca+2) transport via diffusion (extracellular to periplasm) | CA2tex | ca2_e ⇋ ca2_p | -1000 | 1000 | 0.026 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Chloride exchange | EX_cl_e | ⇋ cl_e | -1000 | 1000 | 0.026 | 0.026 | |
| Transport, Outer Membrane Porin | chloride (Cl-1) transport via diffusion (extracellular to periplasm) | CLtex | cl_e ⇋ cl_p | -1000 | 1000 | 0.026 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| CO2 exchange | EX_co2_e | ⇋ co2_e | -1000 | 1000 | 2e+02 | 2e+02 | |
| Transport, Outer Membrane Porin | CO2 transport via diffusion (extracellular to periplasm) | CO2tex | co2_e ⇋ co2_p | -1000 | 1000 | 2e+02 | -2e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Co2+ exchange | EX_cobalt2_e | ⇋ cobalt2_e | -1000 | 1000 | 0.00012 | 0.00012 | |
| Transport, Outer Membrane Porin | cobalt (Co+2) transport via diffusion (extracellular to periplasm) | COBALT2tex | cobalt2_e ⇋ cobalt2_p | -1000 | 1000 | 0.00012 | -0.00012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Cu2+ exchange | EX_cu2_e | ⇋ cu2_e | -1000 | 1000 | 0.0035 | 0.0035 | |
| Transport, Outer Membrane Porin | copper (Cu+2) transport via diffusion (extracellular to periplasm) | CU2tex | cu2_e ⇋ cu2_p | -1000 | 1000 | 0.0035 | -0.0035 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Fe2+ exchange | EX_fe2_e | ⇋ fe2_e | -1000 | 1000 | 0.079 | 0.079 | |
| Transport, Outer Membrane Porin | iron (II) transport via diffusion (extracellular to periplasm) | FE2tex | fe2_e ⇋ fe2_p | -1000 | 1000 | 0.079 | -0.079 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| H+ exchange | EX_h_e | ⇋ h_e | -1000 | 1000 | 9.5e+02 | 9.5e+02 | |
| Transport, Outer Membrane Porin | proton transport via diffusion (extracellular to periplasm) | Htex | h_e ⇋ h_p | -1000 | 1000 | 9.5e+02 | -9.5e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | H2O transport via diffusion (extracellular to periplasm) | H2Otex | h2o_p ⇋ h2o_e | -1000 | 1000 | 9.3e+02 | 9.3e+02 |
| H2O exchange | EX_h2o_e | h2o_e ⇋ | -1000 | 1000 | 9.3e+02 | -9.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| K+ exchange | EX_k_e | ⇋ k_e | -1000 | 1000 | 0.96 | 0.96 | |
| Transport, Outer Membrane Porin | potassium transport via diffusion (extracellular to periplasm) | Ktex | k_e ⇋ k_p | -1000 | 1000 | 0.96 | -0.96 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Lipopolysaccharide Biosynthesis / Recycling | KDO(2)-lipid IV A transport via ABC system (periplasm to extracellular) | K2L4Aabctex | kdo2lipid4_p + h2o_c + atp_c ⇋ kdo2lipid4_e + adp_c + h_c + pi_c | 0 | 1000 | 0.096 | 0.096 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | Methanol transport via diffusion (extracellular to periplasm) | MEOHtex | meoh_p ⇋ meoh_e | -1000 | 1000 | 9.9e-06 | 9.9e-06 |
| methanol exchange | EX_meoh_e | meoh_e ⇋ | 0 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Mg exchange | EX_mg2_e | ⇋ mg2_e | -1000 | 1000 | 0.043 | 0.043 | |
| Transport, Outer Membrane Porin | magnesium (Mg+2) transport via diffusion (extracellular to periplasm) | MG2tex | mg2_e ⇋ mg2_p | -1000 | 1000 | 0.043 | -0.043 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Mn2+ exchange | EX_mn2_e | ⇋ mn2_e | -1000 | 1000 | 0.0034 | 0.0034 | |
| Transport, Outer Membrane Porin | Manganese (Mn+2) transport via diffusion (extracellular to periplasm) | MNtex | mn2_e ⇋ mn2_p | -1000 | 1000 | 0.0034 | -0.0034 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Molybdate exchange | EX_mobd_e | ⇋ mobd_e | -1000 | 1000 | 0.00064 | 0.00064 | |
| Transport, Outer Membrane Porin | molybdate transport via diffusion (extracellular to periplasm) | MOBDtex | mobd_e ⇋ mobd_p | -1000 | 1000 | 0.00064 | -0.00064 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Ammonia exchange | EX_nh4_e | ⇋ nh4_e | -1000 | 1000 | 53 | 53 | |
| Transport, Outer Membrane Porin | ammonia transport via diffusion (extracellular to periplasm) | NH4tex | nh4_e ⇋ nh4_p | -1000 | 1000 | 53 | -53 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Ni2+ exchange | EX_ni2_e | ⇋ ni2_e | -1000 | 1000 | 0.0016 | 0.0016 | |
| Transport, Outer Membrane Porin | nickel transport via diffusion (extracellular to periplasm) | NI2tex | ni2_e ⇋ ni2_p | -1000 | 1000 | 0.0016 | -0.0016 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| O2 exchange | EX_o2_e | ⇋ o2_e | -1000 | 1000 | 2.9e+02 | 2.9e+02 | |
| Transport, Outer Membrane Porin | oxygen transport via diffusion (extracellular to periplasm) | O2tex | o2_e ⇋ o2_p | -1000 | 1000 | 2.9e+02 | -2.9e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Phosphate exchange | EX_pi_e | ⇋ pi_e | -1000 | 1000 | 4.8 | 4.8 | |
| Transport, Outer Membrane Porin | phosphate transport via diffusion (extracellular to periplasm) | PItex | pi_e ⇋ pi_p | -1000 | 1000 | 4.8 | -4.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Sulfate exchange | EX_so4_e | ⇋ so4_e | -1000 | 1000 | 1.2 | 1.2 | |
| Transport, Outer Membrane Porin | sulfate transport via diffusion (extracellular to periplasm) | SO4tex | so4_e ⇋ so4_p | -1000 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Zinc exchange | EX_zn2_e | ⇋ zn2_e | -1000 | 1000 | 0.0017 | 0.0017 | |
| Transport, Outer Membrane Porin | zinc (Zn+2) transport via diffusion (extracellular to periplasm) | Zn2tex | zn2_e ⇋ zn2_p | -1000 | 1000 | 0.0017 | -0.0017 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Murein Biosynthesis | murein crosslinking transpeptidase 1A:(A2pm->D-ala) (periplasm) | MCTP1App | murein5p5p_p ⇋ ala_D_p + murein5px4p_p | 0 | 1000 | 0.068 | 0.068 |
| Transport, Inner Membrane | D-alanine transport in via proton symport (periplasm) | DALAt2pp | ala_D_p + h_p ⇋ ala_D_c + h_c | 0 | 1000 | 0.068 | -0.068 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | calcium (Ca+2) transport via diffusion (extracellular to periplasm) | CA2tex | ca2_e ⇋ ca2_p | -1000 | 1000 | 0.026 | 0.026 |
| Inorganic Ion Transport and Metabolism | calcium / sodium antiporter (1:1) | CAt6pp | ca2_p + na1_c ⇋ na1_p + ca2_c | -1000 | 1000 | 0.026 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | chloride (Cl-1) transport via diffusion (extracellular to periplasm) | CLtex | cl_e ⇋ cl_p | -1000 | 1000 | 0.026 | 0.026 |
| Inorganic Ion Transport and Metabolism | chloride transport out via proton antiport (2:1) (periplasm) | CLt3_2pp | h_c + 2 cl_p ⇋ h_p + 2 cl_c | 0 | 1000 | 0.013 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | CO2 transport via diffusion (extracellular to periplasm) | CO2tex | co2_e ⇋ co2_p | -1000 | 1000 | 2e+02 | 2e+02 |
| Transport, Inner Membrane | CO2 transporter via diffusion (periplasm) | CO2tpp | co2_p ⇋ co2_c | -1000 | 1000 | 2e+02 | -2e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | cobalt (Co+2) transport via diffusion (extracellular to periplasm) | COBALT2tex | cobalt2_e ⇋ cobalt2_p | -1000 | 1000 | 0.00012 | 0.00012 |
| Inorganic Ion Transport and Metabolism | cobalt transport in via permease (no H+) | COBALT2tpp | cobalt2_p ⇋ cobalt2_c | 0 | 1000 | 0.00012 | -0.00012 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | copper (Cu+2) transport via diffusion (extracellular to periplasm) | CU2tex | cu2_e ⇋ cu2_p | -1000 | 1000 | 0.0035 | 0.0035 |
| Inorganic Ion Transport and Metabolism | copper transport in via permease (no H+) | CU2tpp | cu2_p ⇋ cu2_c | 0 | 1000 | 0.0035 | -0.0035 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | iron (II) transport via diffusion (extracellular to periplasm) | FE2tex | fe2_e ⇋ fe2_p | -1000 | 1000 | 0.079 | 0.079 |
| Inorganic Ion Transport and Metabolism | iron (+2) transport in via permease (no H+) | FE2tpp | fe2_p ⇋ fe2_c | 0 | 1000 | 0.079 | -0.079 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Oxidative Phosphorylation | cytochrome oxidase bo3 (ubiquinol-8: 4 protons) (periplasm) | CYTBO3_4pp | 0.5 o2_c + q8h2_c + 4 h_c ⇋ h2o_c + q8_c + 4 h_p | 0 | 1000 | 5.7e+02 | 2.3e+03 |
| Oxidative Phosphorylation | NADH dehydrogenase (ubiquinone-8 & 3 protons) (periplasm) | NADH16pp | nadh_c + 4 h_c + q8_c ⇋ nad_c + 3 h_p + q8h2_c | 0 | 1000 | 5.7e+02 | 1.7e+03 |
| Transport, Outer Membrane Porin | proton transport via diffusion (extracellular to periplasm) | Htex | h_e ⇋ h_p | -1000 | 1000 | 9.5e+02 | 9.5e+02 |
| Inorganic Ion Transport and Metabolism | magnesium (Mg+2) transport in/out via proton antiport (periplasm) | MG2t3_2pp | 2 h_c + mg2_p ⇋ mg2_c + 2 h_p | -1000 | 1000 | 0.043 | 0.086 |
| Transport, Inner Membrane | L-proline reversible transport via proton symport (periplasm) | PROt2rpp | h_c + pro_L_c ⇋ pro_L_p + h_p | -1000 | 1000 | 0.026 | 0.026 |
| Inorganic Ion Transport and Metabolism | chloride transport out via proton antiport (2:1) (periplasm) | CLt3_2pp | h_c + 2 cl_p ⇋ h_p + 2 cl_c | 0 | 1000 | 0.013 | 0.013 |
| Transport, Inner Membrane | D-alanine transport in via proton symport (periplasm) | DALAt2pp | ala_D_p + h_p ⇋ ala_D_c + h_c | 0 | 1000 | 0.068 | -0.068 |
| Inorganic Ion Transport and Metabolism | potassium transport in via proton symport (periplasm) | Kt2pp | k_p + h_p ⇋ h_c + k_c | 0 | 1000 | 0.96 | -0.96 |
| Inorganic Ion Transport and Metabolism | sulfate transport in via proton symport (periplasm to cytoplasm) | SO4t2pp | so4_p + h_p ⇋ h_c + so4_c | 0 | 1000 | 1.2 | -1.2 |
| Inorganic Ion Transport and Metabolism | phosphate reversible transport via symport (periplasm) | PIt2rpp | pi_p + h_p ⇋ h_c + pi_c | -1000 | 1000 | 4.8 | -4.8 |
| Oxidative Phosphorylation | NAD(P) transhydrogenase (periplasm) | THD2pp | nadh_c + nadp_c + 2 h_p ⇋ nad_c + nadph_c + 2 h_c | 0 | 1000 | 5.3e+02 | -1.1e+03 |
| Oxidative Phosphorylation | ATP synthase (four protons for one ATP) (periplasm) | ATPS4rpp | adp_c + pi_c + 4 h_p ⇋ 3 h_c + atp_c + h2o_c | -1000 | 1000 | 9.8e+02 | -3.9e+03 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Inner Membrane | H2O transport via diffusion (periplasm) | H2Otpp | h2o_c ⇋ h2o_p | -1000 | 1000 | 9.3e+02 | 9.3e+02 |
| Transport, Outer Membrane Porin | H2O transport via diffusion (extracellular to periplasm) | H2Otex | h2o_p ⇋ h2o_e | -1000 | 1000 | 9.3e+02 | -9.3e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | potassium transport via diffusion (extracellular to periplasm) | Ktex | k_e ⇋ k_p | -1000 | 1000 | 0.96 | 0.96 |
| Inorganic Ion Transport and Metabolism | potassium transport in via proton symport (periplasm) | Kt2pp | k_p + h_p ⇋ h_c + k_c | 0 | 1000 | 0.96 | -0.96 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Inner Membrane | KDO(2)-lipid IV A transport via ABC system (periplasm) | K2L4Aabcpp | kdo2lipid4_c + atp_c + h2o_c ⇋ h_c + adp_c + kdo2lipid4_p + pi_c | 0 | 1000 | 0.096 | 0.096 |
| Lipopolysaccharide Biosynthesis / Recycling | KDO(2)-lipid IV A transport via ABC system (periplasm to extracellular) | K2L4Aabctex | kdo2lipid4_p + h2o_c + atp_c ⇋ kdo2lipid4_e + adp_c + h_c + pi_c | 0 | 1000 | 0.096 | -0.096 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Inner Membrane | Methanol reversible transport via diffusion (periplasm) | MEOHtrpp | meoh_c ⇋ meoh_p | -1000 | 1000 | 9.9e-06 | 9.9e-06 |
| Transport, Outer Membrane Porin | Methanol transport via diffusion (extracellular to periplasm) | MEOHtex | meoh_p ⇋ meoh_e | -1000 | 1000 | 9.9e-06 | -9.9e-06 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | magnesium (Mg+2) transport via diffusion (extracellular to periplasm) | MG2tex | mg2_e ⇋ mg2_p | -1000 | 1000 | 0.043 | 0.043 |
| Inorganic Ion Transport and Metabolism | magnesium (Mg+2) transport in/out via proton antiport (periplasm) | MG2t3_2pp | 2 h_c + mg2_p ⇋ mg2_c + 2 h_p | -1000 | 1000 | 0.043 | -0.043 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | Manganese (Mn+2) transport via diffusion (extracellular to periplasm) | MNtex | mn2_e ⇋ mn2_p | -1000 | 1000 | 0.0034 | 0.0034 |
| Inorganic Ion Transport and Metabolism | manganese transport in via permease (no H+) | MN2tpp | mn2_p ⇋ mn2_c | 0 | 1000 | 0.0034 | -0.0034 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | molybdate transport via diffusion (extracellular to periplasm) | MOBDtex | mobd_e ⇋ mobd_p | -1000 | 1000 | 0.00064 | 0.00064 |
| Inorganic Ion Transport and Metabolism | molybdate transport via ABC system (periplasm) | MOBDabcpp | mobd_p + atp_c + h2o_c ⇋ mobd_c + adp_c + h_c + pi_c | 0 | 1000 | 0.00064 | -0.00064 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Murein Biosynthesis | murein polymerizing transglycosylase | MPTG | 2 uaagmda_c ⇋ 2 h_c + murein5p5p_p + 2 udcpdp_c | 0 | 1000 | 0.068 | 0.068 |
| Murein Biosynthesis | murein crosslinking transpeptidase 1A:(A2pm->D-ala) (periplasm) | MCTP1App | murein5p5p_p ⇋ ala_D_p + murein5px4p_p | 0 | 1000 | 0.068 | -0.068 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Murein Biosynthesis | murein crosslinking transpeptidase 1A:(A2pm->D-ala) (periplasm) | MCTP1App | murein5p5p_p ⇋ ala_D_p + murein5px4p_p | 0 | 1000 | 0.068 | 0.068 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.068 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Inorganic Ion Transport and Metabolism | calcium / sodium antiporter (1:1) | CAt6pp | ca2_p + na1_c ⇋ na1_p + ca2_c | -1000 | 1000 | 0.026 | 0.026 |
| Transport, Inner Membrane | Na+/Proline-L symporter (periplasm) | PROt4pp | na1_p + pro_L_p ⇋ pro_L_c + na1_c | 0 | 1000 | 0.026 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | ammonia transport via diffusion (extracellular to periplasm) | NH4tex | nh4_e ⇋ nh4_p | -1000 | 1000 | 53 | 53 |
| Inorganic Ion Transport and Metabolism | ammonia reversible transport (periplasm) | NH4tpp | nh4_p ⇋ nh4_c | -1000 | 1000 | 53 | -53 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | nickel transport via diffusion (extracellular to periplasm) | NI2tex | ni2_e ⇋ ni2_p | -1000 | 1000 | 0.0016 | 0.0016 |
| Inorganic Ion Transport and Metabolism | nickel (+2) transport in via permease (no H+) | NI2tpp | ni2_p ⇋ ni2_c | 0 | 1000 | 0.0016 | -0.0016 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | oxygen transport via diffusion (extracellular to periplasm) | O2tex | o2_e ⇋ o2_p | -1000 | 1000 | 2.9e+02 | 2.9e+02 |
| Inorganic Ion Transport and Metabolism | o2 transport via diffusion (periplasm) | O2tpp | o2_p ⇋ o2_c | -1000 | 1000 | 2.9e+02 | -2.9e+02 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:0, periplasm) | PE160abcpp | h2o_c + pe160_c + atp_c ⇋ pe160_p + adp_c + h_c + pi_c | 0 | 1000 | 0.23 | 0.23 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.23 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Inner Membrane | phosphatidylethanolamine transport via ABC system (n-C16:1, periplasm) | PE161abcpp | h2o_c + pe161_c + atp_c ⇋ adp_c + h_c + pi_c + pe161_p | 0 | 1000 | 0.1 | 0.1 |
| E. coli biomass objective function (iJO1366) - core - with 53.95 GAM estimate | Ec_biomass_iJO1366_core_53p95M | 0.290529 ile_L_c + 0.027017 dctp_c + 0.000223 sheme_c + 0.000691 mn2_c + 0.215096 gtp_c + 0.26316 gln_L_c + 0.00026 4fe4s_c + 0.423162 val_L_c + 0.133508 ctp_c + 54.1248 atp_c + 5.5e-05 udcpdp_c + 0.000223 ribflv_c + 0.221055 pro_L_c + 0.000223 amet_c + 0.000341 zn2_c + 0.343161 lys_L_c + 0.001831 nad_c + 2.5e-05 cobalt2_c + 48.6015 h2o_c + 0.09158 cys_L_c + 0.056843 trp_L_c + 0.195193 k_c + 0.026166 dttp_c + 0.000223 pydx5p_c + 0.017868 pe160_c + 0.000323 ni2_c + 0.215792 ser_L_c + 0.450531 leu_L_c + 0.013013 nh4_c + 0.008675 mg2_c + 0.094738 his_L_c + 0.004338 so4_c + 0.000223 10fthf_c + 0.054154 pe161_c + 0.000223 mlthf_c + 0.000223 fad_c + 0.02106 pe161_p + 0.137896 tyr_L_c + 0.000223 pheme_c + 0.513689 ala_L_c + 0.295792 arg_L_c + 0.019456 kdo2lipid4_e + 0.000447 nadp_c + 0.000122 bmocogdp_c + 2.6e-05 2fe2s_c + 0.000223 2ohph_c + 0.013894 murein5px4p_p + 0.000576 coa_c + 0.005205 ca2_c + 0.241055 asn_L_c + 0.185265 phe_L_c + 0.612638 gly_c + 0.045946 pe160_p + 0.000223 thmpp_c + 0.26316 glu_L_c + 0.253687 thr_L_c + 0.153686 met_L_c + 0.027017 dgtp_c + 0.000223 thf_c + 0.007808 fe3_c + 7e-06 mobd_c + 0.026166 datp_c + 0.000709 cu2_c + 0.241055 asp_L_c + 2e-06 btn_c + 0.006715 fe2_c + 0.005205 cl_c + 0.144104 utp_c ⇋ 53.95 h_c + 53.95 adp_c + 0.773903 ppi_c + 53.9457 pi_c | 0.1 | 1000 | 4.9 | -0.1 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | phosphate transport via diffusion (extracellular to periplasm) | PItex | pi_e ⇋ pi_p | -1000 | 1000 | 4.8 | 4.8 |
| Inorganic Ion Transport and Metabolism | phosphate reversible transport via symport (periplasm) | PIt2rpp | pi_p + h_p ⇋ h_c + pi_c | -1000 | 1000 | 4.8 | -4.8 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Inner Membrane | L-proline reversible transport via proton symport (periplasm) | PROt2rpp | h_c + pro_L_c ⇋ pro_L_p + h_p | -1000 | 1000 | 0.026 | 0.026 |
| Transport, Inner Membrane | Na+/Proline-L symporter (periplasm) | PROt4pp | na1_p + pro_L_p ⇋ pro_L_c + na1_c | 0 | 1000 | 0.026 | -0.026 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | sulfate transport via diffusion (extracellular to periplasm) | SO4tex | so4_e ⇋ so4_p | -1000 | 1000 | 1.2 | 1.2 |
| Inorganic Ion Transport and Metabolism | sulfate transport in via proton symport (periplasm to cytoplasm) | SO4t2pp | so4_p + h_p ⇋ h_c + so4_c | 0 | 1000 | 1.2 | -1.2 |
| Sub System | Reaction Name | Reaction ID | Reaction | LB | UB | Reaction Flux | Net Flux |
| Transport, Outer Membrane Porin | zinc (Zn+2) transport via diffusion (extracellular to periplasm) | Zn2tex | zn2_e ⇋ zn2_p | -1000 | 1000 | 0.0017 | 0.0017 |
| Inorganic Ion Transport and Metabolism | zinc transport in via permease (no H+) | ZN2tpp | zn2_p ⇋ zn2_c | 0 | 1000 | 0.0017 | -0.0017 |